Abstract:
The present disclosure provides methods for molecular fingerprinting for the characterization and identification of organisms. More specifically, in one aspect the present invention provides a method of identifying an organism in a sample comprising: (a) providing a sample comprising said organism, said organism comprising at least one nucleic acid; (b) combining said sample or the at least one nucleic acid therefrom with an amplification mix comprising at least one labeled oligonucleotide primer; (c) generating at least one labeled amplification product from the at least one nucleic acid of said organism using a nucleotide amplification technique employing said at least one labeled oligonucleotide primer; (d) combining said at least one labeled amplification product with products of a DNA sequencing reaction to create a separation mix; and (e) separating said separation mix on the basis of oligonucleotide length in a fluorescent DNA sequencing instrument to generate a sequence embedded fingerprint pattern for said organism.

Description:
CROSS-REFERENCE TO RELATED APPLICATION 
       [0001]    This application claims the benefit of U.S. Provisional Application No. 61/235,999, filed Aug. 21, 2009, which is incorporated by reference herein in its entirety. 
     
    
     FIELD OF THE INVENTION 
       [0002]    This invention relates to the field of molecular biology and more specifically to methods for molecular fingerprinting for the characterization and identification of organisms. 
       BACKGROUND OF THE INVENTION 
       [0003]    Central to the field of microbiology is the ability to positively identify microorganisms at the level of genus, species, or serotype. Correct identification is not only an essential tool in the laboratory, but it plays a significant role in the control of microbial contamination in the processing of food stuffs, the production of agricultural products, and the monitoring of environmental media, such as ground water. Of greatest concern is the detection and control of pathogenic microorganisms. Typically, pathogen identification has relied on methods for distinguishing phenotypic aspects, such as growth or motility characteristics, and for immunological and serological characteristics. Selective growth procedures and immunological methods are the traditional methods of choice for bacterial identification and these can be effective for the presumptive detection of a large number of species within a particular genus. However, these methods are time consuming and are subject to error. Selective growth methods require culturing and subculturing in selective media, followed by subjective analysis by an experienced investigator. Immunological detection (e.g., ELISA) is more rapid and specific, however, it still requires growth of a significant population of organisms and isolation of the relevant antigens. For these reasons, interest has turned to detection of bacterial pathogens based on nucleic acid sequence. 
         [0004]    Nucleic acid polymorphism provides a means to identify species, serotypes, strains, varieties, breeds, or individuals based on differences in their genetic make up. Nucleic acid polymorphism can be caused by nucleotide substitution, insertion, or deletion. The ability to determine genetic polymorphism has widespread application in areas such as genome mapping, genetic linkage studies, medical diagnosis, epidemiological studies, forensics, and agriculture. Several methods have been developed to compare homogenous segments of DNA to determine if polymorphism exists. 
         [0005]    One method for determining genetic polymorphism uses primers of an arbitrary sequence to amplify DNA by the polymerase chain reaction (PCR) (Williams et al., Nucleic Acids Res. 18:6531-35 (1990); U.S. Pat. No. 5,126,239, incorporated herein by reference). Because the primers are not designed to amplify a specific sequence, the technique is called random amplification of polymorphic DNA (RAPD) or arbitrarily primed PCR (APPCR). The primers used are at least seven nucleotides in length. Under the proper conditions, differences as small as a single nucleotide can affect the binding of the primer to the template DNA, thus resulting in differences in the distribution of amplification products produced between genomes. 
         [0006]    Another method for identifying and mapping genetic polymorphisms has been termed amplified fragment length polymorphism (AFLP; U.S. Pat. No. 5,874,215, incorporated herein by reference). AFLP combines the use of restriction enzymes with the use of PCR. Briefly, restriction fragments are produced by the digestion of genomic DNA with a single or a pair of restriction enzymes. If a pair of enzymes is used, enzymes are paired based on differences in the frequency of restriction sites in the genome, such that one of the restriction enzymes is a “frequent cutter” while the remaining enzyme is a “rare cutter.” The use of two enzymes results in the production of single and double digestion fragments. Next, double stranded synthetic oligonucleotide adaptors of 10-30 bases are ligated onto the fragments generated. Primers are then designed based on the sequence of the adapters and the restriction site. When pairs of restriction enzymes are used, nucleotides extending into the restriction sites are added to the 3′ end of the primers such that only fragments generated due to the action of both enzymes (double cut fragments) are amplified. Using this method, any polymorphism present at or near the restriction site will affect the binding of the primer and thus the distribution of the amplification products. In addition, any differences in the nucleotide sequence in the area flanked by the primers will also be detected. AFLP allows for the simultaneous co-amplification of multiple fragments. 
         [0007]    A further method is Direct Linear Analysis (DLA), which analyzes individual DNA molecules bound with sequence-specific tags (see Chan et al., Genome Res. 14:1137-46 (2004); U.S. Pat. No. 6,263,286, incorporated herein by reference). The method is intended to identify repetitive information in DNA, which is moved past at least one station, at which labelled units of DNA interact with the station to produce a DNA-dependent impulse. Because the extended objects are similar, or preferably identical, and comprise a similar, or preferably identical, pattern of labelled units, a characteristic signature of interactions is repeated as each extended object moves past a station or a plurality of stations. This repetitive information is extracted from the overall raw data by means of an autocorrelation function and is then used to determine structural information about the DNA. 
         [0008]    Another method is amplification of repetitive elements (REP-PCR). This technique is based on families of repetitive DNA sequences present throughout the genome of diverse bacterial species (reviewed by Versalovic et al., Methods Mol. Cell. Biol. 5:25-40 (1994)). Repetitive extragenic palindromic (REP) sequences are thought to play an important role in the organization of the bacterial genome. Genomic organization is believed to be shaped by selection and the differential dispersion of these elements within the genome of closely related bacterial strains can be used to discriminate between strains (see, e.g., Louws et al., Appl. Environ. Micro. 60:2286-95 (1994)). REP-PCR utilizes oligonucleotide primers complementary to these repetitive sequences to amplify the variably sized DNA fragments lying between them. The resulting products are separated by electrophoresis to establish the DNA “fingerprint” for each strain. 
         [0009]    The output data of these fingerprinting systems generally is measured by assigning band sizes, though these assignments are somewhat imprecise depending on the sizing ladder used for the comparison. In addition, the output data can be difficult to compare between laboratories and often relies on the use of expensive proprietary software programs (such as BioNumerics, Applied Maths, Austin, Tex.) to handle the data. 
       SUMMARY OF THE INVENTION 
       [0010]    Applicants have solved the aforementioned problems by embedding the fingerprint bands from any amplification based fingerprinting method within a DNA sequence so that small differences in size are resolvable. Fingerprint output is provided in a text file format that can then be analyzed by powerful, freeware bioinformatics tools. 
         [0011]    One aspect is for a method of identifying an organism in a sample comprising: (a) providing a sample comprising said organism, said organism comprising at least one nucleic acid; (b) combining said sample or the at least one nucleic acid therefrom with an amplification mix comprising at least one labeled oligonucleotide primer; (c) generating at least one labeled amplification product from the at least one nucleic acid of said organism using a nucleotide amplification technique employing said at least one labeled oligonucleotide primer; (d) combining said at least one labeled amplification product with products of a DNA sequencing reaction to create a separation mix; and (e) separating said separation mix on the basis of oligonucleotide length in a fluorescent DNA sequencing instrument to generate a sequence embedded fingerprint pattern for said organism. 
         [0012]    In some aspects, the method comprises after step (e) the further steps of: (f) comparing said sequence embedded fingerprint pattern for said organism to a database containing sequence embedded fingerprint patterns for known organisms; and (g) identifying said organism as a function of said comparison to said database. 
         [0013]    Another aspect is for an isolated polynucleotide comprising the nucleic acid sequence set forth in SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQ ID NO:4, or SEQ ID NO:5. 
         [0014]    Other objects and advantages will become apparent to those skilled in the art upon reference to the detailed description that hereinafter follows. 
       SUMMARY OF THE SEQUENCES 
       [0015]    SEQ ID NOs:1-4 and 25 are the nucleotide sequences of oligonucleotide primers useful in the present invention. Each primer can be employed alone or in conjunction with one or more other primers. For example, SEQ ID NOs:1-4 can be employed together to create the FB1D1 primer mix, while SEQ ID NO:25 can be employed alone as the FP5 primer. 
         [0016]    SEQ ID NOS:5-7, 13, and 14 are the nucleotide sequences resulting from operating the method of the present invention with negative control PCR reactions obtained using the FB1D1 primer set. 
         [0017]    SEQ ID NOS:8-12 are the nucleotide sequences resulting from operating the method of the present invention with PCR reactions obtained using the FB1D1 primer set and  Saccharomyces cerevisiae  DNA. 
         [0018]    SEQ ID NOS:15-19 are the nucleotide sequences resulting from operating the method of the present invention with PCR reactions obtained using the FB1D1 primer set and  Salmonella enterica  DNA. 
         [0019]    SEQ ID NOS:20-24 are the nucleotide sequences resulting from operating the method of the present invention with PCR reactions obtained using the FB1D1 primer set and  Staphylococcus aureus  DNA. 
         [0020]    SEQ ID NOS:26-30 are the nucleotide sequences resulting from operating the method of the present invention with negative control PCR reactions obtained using the FP5 primer. 
         [0021]    SEQ ID NOS:31-35 are the nucleotide sequences resulting from operating the method of the present invention with PCR reactions obtained using the FP5 primer and  Staphylococcus aureus  DNA. 
         [0022]    SEQ ID NOS:36-40 are the nucleotide sequences resulting from operating the method of the present invention with PCR reactions obtained using the FP5 primer and  Salmonella enterica  DNA. 
         [0023]    SEQ ID NOS:41-45 are the nucleotide sequences resulting from operating the method of the present invention with PCR reactions obtained using the FP5 primer and  Saccharomyces cerevisiae  DNA. 
         [0024]    SEQ ID NO:46 is the consensus nucleotide sequence obtained from a sequence comparison of SEQ ID NOS:21-23. 
         [0025]    SEQ ID NO:47 is the consensus nucleotide sequence obtained from a sequence comparison of SEQ ID NOS:33-35. 
         [0026]    SEQ ID NO:48 is the consensus nucleotide sequence obtained from a sequence comparison of SEQ ID NOS:9-11, 
         [0027]    SEQ ID NO:49 is the consensus nucleotide sequence obtained from a sequence comparison of SEQ ID NOS:41, 43, and 45. 
         [0028]    SEQ ID NO:50 is the consensus nucleotide sequence obtained from a sequence comparison of SEQ ID NOS:17-19. 
         [0029]    SEQ ID NO:51 is the consensus nucleotide sequence obtained from a sequence comparison of SEQ ID NOS:36-38. 
         [0030]    The sequences conform with 37 C.F.R. §§1.821-1.825 (“Requirements for Patent Applications Containing Nucleotide Sequences and/or Amino Acid Sequence Disclosures—the Sequence Rules”) and are consistent with World Intellectual Property Organization (WIPO) Standard ST.25 (1998) and the sequence listing requirements of the EPO and PCT (Rules 5.2 and 49.5(a-bis), and Section 208 and Annex C of the Administrative Instructions). The symbols and format used for nucleotide and amino acid sequence data comply with the rules set forth in 37 C.F.R. 1.822. 
     
    
     
       BRIEF DESCRIPTION OF THE DRAWINGS 
         [0031]      FIG. 1A  shows a phylogram generated from a Clustal W alignment of all sequence reads from primer mix FB1D1 of Example 1. 
           [0032]      FIG. 1B  shows a phylogram generated from a Clustal W alignment of all sequence reads from single primer FP5 of Example 1. 
       
    
    
     DETAILED DESCRIPTION 
       [0033]    Applicants specifically incorporate the entire contents of all cited references in this disclosure. Further, when an amount, concentration, or other value or parameter is given as either a range, preferred range, or a list of upper preferable values and lower preferable values, this is to be understood as specifically disclosing all ranges formed from any pair of any upper range limit or preferred value and any lower range limit or preferred value, regardless of whether ranges are separately disclosed. Where a range of numerical values is recited herein, unless otherwise stated, the range is intended to include the endpoints thereof, and all integers and fractions within the range. It is not intended that the scope of the invention be limited to the specific values recited when defining a range. 
         [0034]    The term “comprising” is intended to include embodiments encompassed by the terms “consisting essentially of” and “consisting of.” Similarly, the term “consisting essentially of” is intended to include embodiments encompassed by the term “consisting of.” 
         [0035]    The term “oligonucleotide” as used herein refers to a molecule comprised of two or more deoxyribonucleotides or ribonucleotides. 
         [0036]    The term “primer” as used herein refers to an oligonucleotide of any arbitrary sequence, whether occurring naturally, as in a purified restriction digest, or produced synthetically, that is capable of acting as a point of initiation of synthesis when placed under conditions in which synthesis of a primer extension product which is complementary to a nucleic acid strand is induced, i.e., in the presence of nucleotides and an agent for polymerization such as DNA polymerase and at a suitable temperature and pH. It is preferable that primers are sequences that do not form a secondary structure by base pairing with other copies of the primer or sequences that form a “hair pin” configuration. The sequence conveniently can be generated by computer or selected at random from a gene bank. The primer is preferably single stranded for maximum efficiency in amplification, but may alternatively be double stranded. If double stranded, the primer is first treated to separate its strands before being used to prepare extension products. Preferably, the primer is an oligodeoxyribonucleotide. 
         [0037]    In the present disclosure, primers used for amplification based fingerprint methods are labelled with a fluor. Following generation of the fingerprint products by amplification, the fingerprint amplicons are comingled with the product of a previously performed DNA sequencing reaction. The comingled products are then run to produce a DNA sequence from a fluorescent DNA sequencing instrument. The sequence output is perturbed at positions where the fingerprint products are migrating with like-sized DNA sequencing fragments. The perturbations result in an altered DNA sequence output from the instrument. These alterations are reproducible, and comparison of the output sequences can be used to characterize and/or identify the organism whose DNA was subject to the fingerprinting method. 
         [0038]    The nucleic acids to be analyzed by a process described herein may be DNA or RNA, and the DNA or RNA may be double stranded or single stranded. Any source of nucleic acid, in purified or nonpurified form, can be utilized as the starting nucleic acid. For example, the nucleic acid may be from a natural DNA or RNA from any source, including virus, bacteria, and higher organisms such as plants, animals, and microbes or from cloned DNA or RNA. Additionally, the nucleic acid may constitute the entire nucleic acid or may be a fraction of a complex mixture of nucleic acids. Preferably, the nucleic acid is deoxyribonucleic acid. 
         [0039]    Processes described herein are applicable to any nucleic acid-containing starting material, including foods and allied products, vaccines and milk infected with a virus or a bacterium, whole blood, blood serum, buffy coat, urine, feces, liquor cerebrospinalis, sperm, saliva, tissues, and cell cultures (such as mammalian cell cultures and bacterial cultures). The processes are also applicable to relatively pure input materials, such as the product of a PCR or the product to be purified further of another process for recovering nucleic acids. 
         [0040]    The step of generating an amplified nucleic acid product can be performed by, for example, RAPD PCR, AFLP PCR, REP-PCR, or DLA. Using RAPD as an example, the choice of nucleic acid polymerase used in the extension reaction, depends on the nature of the template. For DNA template strands, suitable commercially available DNA polymerase includes DNA polymerase obtained from the thermophilic bacterium  Thermus aquaticus  (Taq polymerase) or other thermostable polymerases. Structural variants and modified forms of this and other DNA polymerases would also be expected to be useful in the process of the present invention. For RNA templates, reverse transcriptase is an example of a DNA polymerase that would also be expected to be useful. In the presence of the nucleoside triphosphate substrates, natural or analogues, the polymerase extends the length of the primer in the 3′ direction. The sequence of the extension product will generally be complementary to the corresponding sequence of the template strand. 
         [0041]    The nucleoside triphosphate substrates are employed as described in PCR Protocols, A Guide to Methods and Applications, M. A. Innis, D. H. Gelfand, J.-J. Sninsky and T. J. White, eds. pp. 3-12, Academic Press (1989), which is incorporated by reference, and U.S. Pat. Nos. 4,683,195 and 4,683,202, both incorporated by reference. The substrates can be modified for a variety of experimental purposes in ways known to those skilled in the art. As an example, at least one of the natural nucleoside triphosphate substrates may be replaced by a mobility-shifting analogue as taught in U.S. Pat. No. 4,879,214, which is incorporated by reference. 
         [0042]    Specifically, U.S. Pat. No. 4,683,202 to Mullis is directed to a process for amplifying any desired specific nucleic acid sequence contained in a nucleic acid or mixture thereof. The process of Mullis comprises treating separate complementary strands of the nucleic acid with a molar excess of two oligonucleotide primers, and extending the primers to form complementary primer extension products, which act as templates for synthesizing the desired nucleic acid sequence. The primers of Mullis are designed to be sufficiently complementary to different strands of each specific sequence to be amplified. The steps of the reaction may be carried out stepwise or simultaneously and can be repeated as often as desired. 
         [0043]    In one embodiment, at least one primer of greater than seven nucleotides is provided. Primers can be synthesized by standard techniques known to those skilled in the art. In some embodiments, at least one primer of nine to ten nucleotides in length is employed. Conveniently, one primer is employed. The at least one primer is labelled, preferably with a fluorophore, which can be, for example, dR6G, dR110, dTAMRA, dROX, VIC, NED, PET, LIZ, 6-FAM, TAMRA, DyeMer488/615, DyeMer488/630, PE-TexasRed, ECD, Alexa Fluor 61ORPE, FITC, Oregon Green 488, or Qdot525. Other fluorophores can also be employed. 
         [0044]    In some embodiments, a nucleic acid is contacted with at least one oligonucleotide primer as described herein. The extension product is dissociated from the complementary random nucleic acid on which it was synthesized to produce a single-stranded molecule; and the random nucleic acid segment is amplified by contacting the single-stranded extension product with a primer from above under conditions as, for example, disclosed in PCR Protocols and U.S. Pat. No. 4,683,202 such that an amplification extension product is synthesized using the single strand produced (i.e., the dissociated extension product) as a template. 
         [0045]    The comingled products are then run to produce a DNA sequence from a fluorescent DNA sequencing instrument. The sequence output is perturbed at positions where the fingerprint products are migrating with like-sized DNA sequencing fragments. The perturbations result in an altered DNA sequence output from the instrument. These alterations are reproducible, and comparison of the output sequences can be used to characterize and/or identify the organism whose DNA was subject to the fingerprinting method using powerful freeware sequence analysis tools such as BLAST and Clustal W. 
         [0046]    A process disclosed herein can be used to construct a nucleic acid ‘fingerprint’. Such fingerprints are specific to individual organisms and can be applied to problems of identification or distinguishing of individual organisms. Such a fingerprint would be constructed using multiple polymorphisms generated by different primers and detected by the present invention, just as the polymorphisms are used to create a fingerprint in Jeffreys, A. J., “Individual-Specific ‘Fingerprints’ of Human DNA”, Nature 316:76-79 (1985), which is incorporated herein by reference. That is, genomes are compared for the presence of absence of polymorphisms. 
         [0047]    In some embodiments, the steps of generating amplification products and producing an amplification profile after mixing the amplifications products with the oligonucleotide size ladder can be repeated at different stringency conditions as compared to that of a first pass through the process to generate a different amplification profile as compared to that generated by the first pass. Multiple repetitions are of course possible. 
       EXAMPLES 
       [0048]    The present invention is further defined in the following Examples. It should be understood that these Examples, while indicating preferred embodiments of the invention, are given by way of illustration only. From the above discussion and these Examples, one skilled in the art can ascertain the preferred features of this invention, and without departing from the spirit and scope thereof, can make various changes and modification of the invention to adapt it to various uses and conditions. 
       Example 1  
       [0049]    The hypothesis that labeled amplification based fingerprinting products could be detected and reproducibly placed within a DNA sequence by means of the invention was tested using Random amplification of polymorphic DNA (RAPD) fingerprinting to generate the fingerprinting products. PCR was performed using a mix of four primers labeled at the 5′ end with a FAM fluor, collectively known as primer mix FB1D1 and single primer FP5 (see Table 1). 
         [0000]                                                    TABLE 1               Primers                                FB1D1 primer mix            1.   5&#39; FAM-CGCTTCGCGTTTTAAAAACCGACATGAGTACAATAC           (SEQ ID NO: 1)               2.   5&#39; FAM-CGCTTCGCGTTTTAAAAACCGACATGAGTACAATCC           (SEQ ID NO: 2)               3.   5&#39; FAM-CGCTTCGCGTTTTAAAAACCGACATGAGTACAATGC           (SEQ ID NO: 3)               4.   5&#39; FAM-CGCTTCGCGTTTTAAAAACCGACATGAGTACAATTC           (SEQ ID NO: 4)                    FP5 primer            5.   5&#39; FAM-ATCCGGCATATCTCGACATTCCTGATTACAATCC           (SEQ ID NO: 25)                    
For primer mix FB1D1, each primer was present in the reaction at 0.25 μM concentration in the presence of other components necessary for performing polymerase chain reaction (nucleotides, polymerase, buffer) in a total reaction volume of 30 μl; for single primer FPS, it was present in the reaction at 0.1 μM concentration in a total reaction volume of 30 μl, in the presence of the other components required by polymerase chain reaction.
 
         [0050]    Reactions were run either with or without (negative controls) the addition of purified microbial DNA from three diverse organisms (one yeast, one gram positive bacterium and one gram negative bacterium (Table 2)) at a concentration of 30 ng per reaction. Five replicates each were run for the negative control and each of the microbial DNA&#39;s. 
         [0000]    
       
         
               
             
               
               
             
           
               
                 TABLE 2 
               
               
                   
               
               
                 Microbial species analyzed 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 1.  Salmonella   enterica  (serovar Minnesota) MR595 
                 ATCC 49284D 
               
               
                 2.  Staphylococcus   aureus  Mu3 
                 ATCC 700698D-5 
               
               
                 3.  Saccharomyces   cerevisiae  S288C 
                 ATCC 204508D-5 
               
               
                   
               
             
          
         
       
     
         [0051]    PCR was carried out using a 2 minute hold at 95° C. followed by 10 cycles of 15 seconds at 95° D.C, 5 minutes at 40° C. and 1 minute at 70° C., followed by 30 cycles of 95° C. for 15 seconds and 3 minutes at 70° C. 
         [0052]    PCR reaction products were cleaned up as appropriate for DNA sequence reactions prior to loading on a capillary electrophoresis sequence apparatus, at which time the PCR products are recovered in a 15 μl volume of H 2 O. 
         [0053]    A 2 μl aliquot of the PCR product is then added to 20 μl of deionized water. A commercial sequence standard (hsp 60, Applied Biosystems, Foster City, Calif.) is prepared as follows. A 1 μl aliquot of the sequence standard is mixed with 9 μl of formamide (HiDi, Applied Biosystems). 1.5 μl of the diluted PCR product is then added to the 10 μl sequence standard/formamide solution. Samples are then mixed, denatured as for a standard sequencing reaction and loaded on to an Applied Biosystems 3730 DNA sequencer and run using standard DNA sequencing conditions. The output sequence files are then analyzed using standard DNA sequence analysis tools. 
         [0054]    In order to test the ability of this invention to characterize an organism as belonging to a group (characterization) the sequences were examined using the Clustal W program (European Bioinformatics Institute web server). Two sets of alignments of sequences produced from primer mix FB1D1 and single primer FP5 of Example 1 are shown in Tables 3A and 3B and the resulting phylograms are shown in  FIGS. 1A and 1B . As hypothesized, the perturbations of the sequence due to the comingling of the PCR products from the RAPD fingerprinting reaction were detected as changes in the sequence output from the instrument. Clustal W alignments show that the replicate samples from a single organism cluster together and are separate from the clusters for non-identical microorganisms. 
         [0000]    
       
         
               
             
               
               
               
             
           
               
                 TABLE 3A 
               
               
                   
               
               
                 CLUSTAL 2.0.11 multiple sequence alignment of all sequence reads from 
               
               
                 primer mix FB1D1 of Example 1. 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 5 
                 -------------GTTGNT-CNNCTGCTGACAATGCTGCTGCTGCTTCNCCTCNCTGTCT 
                 46 
               
               
                 FB1D1-neg-control-4 
                   
                   
               
               
                 SEQ ID NO: 6 
                 --------------------TCNCNGCTGACAATGCTGCTGCTGCTTCNCCTCNNNGTCT 
                 40 
               
               
                 FB1D1-neg-control-5 
                   
                   
               
               
                 SEQ ID NO: 7 
                 --------GTNNNGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCTCCTCNNTGTCT 
                 52 
               
               
                 FB1D1-neg-control-2 
                   
                   
               
               
                 SEQ ID NO: 8 
                 ------------TGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCTCCTCACTGTCT 
                 48 
               
               
                 FB1D1- S. cerevisiae -5 
                   
                   
               
               
                 SEQ ID NO: 9 
                 -----CTGNTAATGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCTCCTCACTGTCT 
                 55 
               
               
                 FB1D1- S. cerevisiae -1 
                   
                   
               
               
                 SEQ ID NO: 10 
                 ----NCNGNNNNNGNTGCTACTACTGCTGACAATGCTGCTGCTGCTTCTCCTCNCTGTCT 
                 56 
               
               
                 FB1D1- S. cerevisiae -3 
                   
                   
               
               
                 SEQ ID NO: 11 
                 -----CTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCNCCTCNCTGTCT 
                 55 
               
               
                 FB1D1- S. cerevisiae -2 
                   
                   
               
               
                 SEQ ID NO: 12 
                 -------------GTTGNT--CNCNGCTGACAATGCTGCTGCTGCTTCTCCTCACTGTCT 
                 45 
               
               
                 FB1D1- S. cerevisiae -4 
                   
                   
               
               
                 SEQ ID NO: 13 
                 --------GNTANGTTGCTNCTACTGCTGACAATGCTGCTGCTGCTTCNCCTCNCTGTCT 
                 52 
               
               
                 FB1D1-neg-control-1 
                   
                   
               
               
                 SEQ ID NO: 14 
                 GNTNNCTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCNCCTCNCTGTCT 
                 60 
               
               
                 FB1D1-neg-control-3 
                   
                   
               
               
                 SEQ ID NO: 15 
                 ------CNGNNNTGTTNCTCNN-CTGCTGACAATGCTGCTGNNGNNNCNCCTCNCTGTCT 
                 53 
               
               
                 FB1D1- S. enterica -5 
                   
                   
               
               
                 SEQ ID NO: 16 
                 ------CNGNNNNGTTGCTNCTACTGCTGACAATGCTGCTGNNGNNNCNCCTCNCTGTCT 
                 54 
               
               
                 FB1D1- S. enterica -4 
                   
                   
               
               
                 SEQ ID NO: 17 
                 ------CNGNNANGTTNNTCNN--NGCTGACAATGCTGCTGCNGCTTCNCCTCNCTGTCT 
                 52 
               
               
                 FB1D1- S. enterica -2 
                   
                   
               
               
                 SEQ ID NO: 18 
                 -------------GTTNNTCNN--NGCTGACAATGCTGCTGCNGCTTCTCCTCNCTGTCT 
                 45 
               
               
                 FB1D1- S. enterica -3 
                   
                   
               
               
                 SEQ ID NO: 19 
                 -------------GTTGCTNCTACTGCTGANAATGCTGCTGCTGCTTCTCCTCNCTGTCT 
                 47 
               
               
                 FB1D1- S. enterica -1 
                   
                   
               
               
                 SEQ ID NO: 20 
                 ----------------GNTCNC--NGNNGANNATGNTGCTGCTGCTTNNNGNNNCTGTCT 
                 42 
               
               
                 FB1D1- S. aureus -4 
                   
                   
               
               
                 SEQ ID NO: 21 
                 ---------TNNGTTGNTCTAC--NGNTGACNATGCTGCTGCTGCTTNNNNNNNCTGTCT 
                 49 
               
               
                 FB1D1- S. aureus -2 
                   
                   
               
               
                 SEQ ID NO: 22 
                 ------CNGTTATGTTGCTCTC--NGCTGACNATGCTGCTGCTGCTTCNNGNNNCTGTCT 
                 52 
               
               
                 FB1D1- S. aureus -3 
                   
                   
               
               
                 SEQ ID NO: 23 
                 -------------GTTGNTCNN--NGCTGACNATGCTGCTGCTGCTTNNNGNNNCTGTCT 
                 45 
               
               
                 FB1D1- S. aureus -1 
                   
                   
               
               
                 SEQ ID NO: 24 
                 ------CNGNNANGTTGNTCNN--NGCTGANNN-GCTGCTGCTGCTTCNNGTNNCTGTCT 
                 51 
               
               
                 FB1D1- S. aureus -5 
                   
                   
               
               
                   
                 * ** * ***** * **** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 106 
               
               
                 FB1D1-neg-control-5 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 100 
               
               
                 FB1D1-neg-control-2 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 112 
               
               
                 FB1D1- S. cerevisiae -5 
                 CCACTTCCTTGAACAATGCGCCGNCNTGCTTCTTTTGCCTCCCGCTGCTCCNGAGNGNTA 
                 108 
               
               
                 FB1D1- S. cerevisiae -1 
                 CCACTTCCTTGAACAATGCGCCGNCNTGCTTCTTTTGCCTCCCGCTGCTCCNGAGNGCTA 
                 115 
               
               
                 FB1D1- S. cerevisiae -3 
                 CCACTTCCTTGAACAATGCGCCGTCNTGCTTCTTTTGCCTCCCGCTGCTCCNNANNGNTA 
                 116 
               
               
                 FB1D1- S. cerevisiae -2 
                 CCACTTCCTTGAACAATGCGCCGNCNTGCTTCTTTTGCCTCCCGCTGCTCCNGAGNGNTA 
                 115 
               
               
                 FB1D1- S. cerevisiae -4 
                 CCACTTCCTTGAACAATGCGCCGNCNTGCTTCTTTTGCCTCCCGCTGCTCCANAGNGCTA 
                 105 
               
               
                 FB1D1-neg-control-1 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 112 
               
               
                 FB1D1-neg-control-3 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 120 
               
               
                 FB1D1- S. enterica -5 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 113 
               
               
                 FB1D1- S. enterica -4 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 114 
               
               
                 FB1D1- S. enterica -2 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 112 
               
               
                 FB1D1- S. enterica -3 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 105 
               
               
                 FB1D1- S. enterica -1 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 107 
               
               
                 FB1D1- S. aureus -4 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 102 
               
               
                 FB1D1- S. aureus -2 
                 CCACTTCCTTGAACAATGNGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 109 
               
               
                 FB1D1- S. aureus -3 
                 CCACTTCCTTGAACAATGNGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 112 
               
               
                 FB1D1- S. aureus -1 
                 CCACTTCCTTGAACANTGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 105 
               
               
                 FB1D1- S. aureus -5 
                 CCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTA 
                 111 
               
               
                   
                 *************** ** **** * ************************* * * ** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 166 
               
               
                 FB1D1-neg-control-5 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 160 
               
               
                 FB1D1-neg-control-2 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 172 
               
               
                 FB1D1- S. cerevisiae -5 
                 GGCCGCAGATCANAACCACCACAGTCAATATCACCACCTTCNTCTTATAGATTCGGAATC 
                 168 
               
               
                 FB1D1- S. cerevisiae -1 
                 GGCCGCAGATCAGAACCACCACAGNCAATATCACCACCNNCNNCTTATAGATTCGGAATC 
                 175 
               
               
                 FB1D1- S. cerevisiae -3 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 176 
               
               
                 FB1D1- S. cerevisiae -2 
                 GGCCGCAGATCAGAACCACCACAGNCAATATCACCACCNTCNNCTTATANATTCGGAATC 
                 175 
               
               
                 FB1D1- S. cerevisiae -4 
                 GGCCGCAGATCANAACCACCACAGNCAATATCACCACCNTCNNCTTATAGATTCGGAATC 
                 165 
               
               
                 FB1D1-neg-control-1 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 172 
               
               
                 FB1D1-neg-control-3 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 180 
               
               
                 FB1D1- S. enterica -5 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCNCCTTCCTCTTATAGATTCGGAATC 
                 173 
               
               
                 FB1D1- S. enterica -4 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 174 
               
               
                 FB1D1- S. enterica -2 
                 GGCCGCAGATCANAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 172 
               
               
                 FB1D1- S. enterica -3 
                 GGCCGCAGATCANAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 165 
               
               
                 FB1D1- S. enterica -1 
                 GGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATC 
                 167 
               
               
                 FB1D1- S. aureus -4 
                 NGNCNNAGATCAGAACCACCACAGTCANNNTCNCCNCCTTCCTCTTATAGATTCGGAATC 
                 162 
               
               
                 FB1D1- S. aureus -2 
                 NGNNNNAGATCAGAACCACCACAGNCNNNNTNACCNCCTTCCTCTTATAGATTCGGAATC 
                 169 
               
               
                 FB1D1- S. aureus -3 
                 GGNCNNAGATCAGAACCACCACAGNCNNTATCNCCNCCTTCCTCTTATAGATTCGGAATC 
                 172 
               
               
                 FB1D1- S. aureus -1 
                 NGNCNNAGATCAGAACCACCACAGNCNNNNTCNCCNCCTTCCTCTTATAGATTCGGAATC 
                 165 
               
               
                 FB1D1- S. aureus -5 
                 GGCCGCAGATCAGAACCACCACAGTCNATATCACCNCCTTCCTCTTATAGATTCGGAATC 
                 171 
               
               
                   
                 * ****** *********** * * ** ** * ****** **********  
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 226 
               
               
                 FB1D1-neg-control-5 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 220 
               
               
                 FB1D1-neg-control-2 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 232 
               
               
                 FB1D1- S. cerevisiae -5 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 228 
               
               
                 FB1D1- S. cerevisiae -1 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 235 
               
               
                 FB1D1- S. cerevisiae -3 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 236 
               
               
                 FB1D1- S. cerevisiae -2 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 235 
               
               
                 FB1D1- S. cerevisiae -4 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 225 
               
               
                 FB1D1-neg-control-1 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 232 
               
               
                 FB1D1-neg-control-3 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 240 
               
               
                 FB1D1- S. enterica -5 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNGNNNNNNAGCTGANGAGC 
                 233 
               
               
                 FB1D1- S. enterica -4 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNNNNNNNNAGCTGANGANC 
                 234 
               
               
                 FB1D1- S. enterica -2 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNNNNNGNNAGCTGANGANC 
                 232 
               
               
                 FB1D1- S. enterica -3 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNNNNNNNGAGCTGAGGAGC 
                 225 
               
               
                 FB1D1- S. enterica -1 
                 TCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNGCAGGCGAGCTGAGGAGC 
                 227 
               
               
                 FB1D1- S. aureus -4 
                 TCATGATAGGGNNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGANGAGC 
                 222 
               
               
                 FB1D1- S. aureus -2 
                 TCATGATAGGGNNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCNAGCTGANGAGC 
                 229 
               
               
                 FB1D1- S. aureus -3 
                 TCATGATAGGGNNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGANGAGC 
                 232 
               
               
                 FB1D1- S. aureus -1 
                 TCATGATAGGGGNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 225 
               
               
                 FB1D1- S. aureus -5 
                 TCATGATAGGGGCTCANCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGC 
                 231 
               
               
                   
                 *********** ** ************************ ****** ** * 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGNNNNGNNNNNNNNCGTG 
                 286 
               
               
                 FB1D1-neg-control-5 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGNNNNNNNNNNNNCGTG 
                 280 
               
               
                 FB1D1-neg-control-2 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAGGAANANNTCGTG 
                 292 
               
               
                 FB1D1- S. cerevisiae -5 
                 AATTGCAGGTGATATGATGTGCTCGGCTCNNNGGGCGNGGN-NNNNNNNNNNANGNCNNG 
                 287 
               
               
                 FB1D1- S. cerevisiae -1 
                 AATTGCNGGTGATATGATGTGCTCGGCTCNNNGGGNNNGGN-GNNNNNNNNANGNCNNG- 
                 293 
               
               
                 FB1D1- S. cerevisiae -3 
                 AATTGCAGGTGATATGATGTGCTCGGCTCANGGGGNNNNNN-NNNNNNNNNNNNNNNNNG 
                 295 
               
               
                 FB1D1- S. cerevisiae -2 
                 AATTGCAGGTGATATGATGTGCTCGGCTCANNGGGCNNNNN-NNNNNNNNNNNNNNNNTG 
                 294 
               
               
                 FB1D1- S. cerevisiae -4 
                 AATTGCAGGTGATATGATGTGCTCGGCTCNNNGGGCGNNNN-NNNNNNNNNNNNNNCNNG 
                 284 
               
               
                 FB1D1-neg-control-1 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCNNNGAGNAGGANGTCGTG 
                 292 
               
               
                 FB1D1-neg-control-3 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCNGNNNNNGNNAGGAAGAAGTCGTG 
                 300 
               
               
                 FB1D1- S. enterica -5 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAGGAAGAAGNNNNN 
                 293 
               
               
                 FB1D1- S. enterica -4 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGANANGAANAAGTNNNN 
                 294 
               
               
                 FB1D1- S. enterica -2 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGNNNNNNAAGNNNNN 
                 292 
               
               
                 FB1D1- S. enterica -3 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCNGGNNAGGAAGAAGNNNNN 
                 285 
               
               
                 FB1D1- S. enterica -1 
                 AATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCNGNNNNGNNNGAAGTCNNG 
                 287 
               
               
                 FB1D1- S. aureus -4 
                 ANTTGCAGGNGNNNNNNTGTGCTCGGCTCAAGAAGCGGGCCCNGNNNNNANNAAGTCGTG 
                 282 
               
               
                 FB1D1- S. aureus -2 
                 ANTTGCAGGNGNNNGNNTGTGCTCGGCTCAAGANGCGGGNCCGGANAGGAAGAAGTCGTG 
                 289 
               
               
                 FB1D1- S. aureus -3 
                 AATTGCAGGTGNNNNNATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAGGAAGAAGTCGTG 
                 292 
               
               
                 FB1D1- S. aureus -1 
                 ANTTGCAGGTGNNNNNATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAGGAAGAAGTCGTG 
                 285 
               
               
                 FB1D1- S. aureus -5 
                 AATTGCAGGTGNNNNNNNGTGCTCGGCTCAAGAAGCGGGCCNNGNNNNNNNNNAGTCGTG 
                 291 
               
               
                   
                 * **** ** * *********** * 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGAATGN 
                 345 
               
               
                 FB1D1-neg-control-5 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGAANGN 
                 339 
               
               
                 FB1D1-neg-control-2 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGAATGN 
                 351 
               
               
                 FB1D1- S. cerevisiae -5 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCGGGNGGNATGN 
                 346 
               
               
                 FB1D1- S. cerevisiae -1 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCNNNNGGNNNGT 
                 352 
               
               
                 FB1D1- S. cerevisiae -3 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGNNGGN 
                 354 
               
               
                 FB1D1- S. cerevisiae -2 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGNNGGN 
                 353 
               
               
                 FB1D1- S. cerevisiae -4 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGNNNNGN 
                 343 
               
               
                 FB1D1-neg-control-1 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGNNNGN 
                 351 
               
               
                 FB1D1-neg-control-3 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCNNCTGGANTNN 
                 359 
               
               
                 FB1D1- S. enterica -5 
                 NCGGGGGCTAATTATTGGCAAAACGAGCTCTTGTTNNNNNNNNNNNNNNGNNNNNNNNNN 
                 353 
               
               
                 FB1D1- S. enterica -4 
                 NCNNGG-CTAATTATTGGCAAAACGAGCTCTTGTTNNNNNNNNNNNNNNGNNNNNNNNNN 
                 353 
               
               
                 FB1D1- S. enterica -2 
                 NNNNNN-NTAATTATTGGCAAAACGAGCTCTTGTTNNNNNNNNNNNNNNGNNNNNNNNNN 
                 351 
               
               
                 FB1D1- S. enterica -3 
                 NNNNNN-NTAATTATTGGCAAAACGAGCTCTTGTTGTANNNNNNNNNNNGNNNNNNNNNN 
                 344 
               
               
                 FB1D1- S. enterica -1 
                 NCGNGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTANNNNNNNNNNNGNNNNNNNNNN 
                 346 
               
               
                 FB1D1- S. aureus -4 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGANNNGGGGGGGGGGN 
                 341 
               
               
                 FB1D1- S. aureus -2 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGNNNNNNNNNNNNNNN 
                 348 
               
               
                 FB1D1- S. aureus -3 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGNAAACNTNGNNNGGGGGGGGNNNN 
                 351 
               
               
                 FB1D1- S. aureus -1 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATNGNNNNNNNNNNNNNNN 
                 344 
               
               
                 FB1D1- S. aureus -5 
                 CCGGGG-CTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGANNNNNNNNNNNNNN 
                 350 
               
               
                   
                 *************************** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 CNCTAATNNNNNNNTCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 405 
               
               
                 FB1D1-neg-control-5 
                 CNCTAANNNNNNAT-CAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 398 
               
               
                 FB1D1-neg-control-2 
                 CNCTAANNNNNNNN-NAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 410 
               
               
                 FB1D1- S. cerevisiae -5 
                 NNNNNANGNNNNNN-NNNNNNGNNNNNNGGNATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 405 
               
               
                 FB1D1- S. cerevisiae -1 
                 NNNNNNNGGNGNNN-GANNNTGNNNNNNGGNATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 411 
               
               
                 FB1D1- S. cerevisiae -3 
                 NNNNNATGGNGNNN-NNNNNTGCCNNNNNGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 413 
               
               
                 FB1D1- S. cerevisiae -2 
                 NNNNNATGGNGNNN-GNNNNTGNNNNNNGGGATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 412 
               
               
                 FB1D1- S. cerevisiae -4 
                 NNNNNANGGNGNNN-NNNNGTGNNNNNNGGNATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 402 
               
               
                 FB1D1-neg-control-1 
                 NACTNANNNNNNNN-CAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 410 
               
               
                 FB1D1-neg-control-3 
                 NNNNNATGGCGAAT-CAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 418 
               
               
                 FB1D1- S. enterica -5 
                 NNACNNNNGGNNNNNCAATATTCCNTANNGCATGATGGTTGCTCAGAGGCANNNNNNNAG 
                 413 
               
               
                 FB1D1- S. enterica -4 
                 NNNCTNNNNNNGNNCNA-TATTCCNTAANGCATGATGGTTGCTCAGAGGCAGGNNNNNAN 
                 412 
               
               
                 FB1D1- S. enterica -2 
                 NA--CTANNGNNGNNCAATATTCCNTANNGCATGATGGTTGCTCAGAGGCAGNNNNNNAG 
                 409 
               
               
                 FB1D1- S. enterica -3 
                 NA--CTNNNNGNGNNCAATATTCCNTANNGCATGATGGTTGCTCAGAGGCAGNNNNNNAG 
                 402 
               
               
                 FB1D1- S. enterica -1 
                 NC--TANNGNNNNATCNATATTCCNTAANGCATGATGGTTGCTCAGAGGCANGNNNNA-G 
                 403 
               
               
                 FB1D1- S. aureus -4 
                 NNN-NNNNNNNA--TCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 398 
               
               
                 FB1D1- S. aureus -2 
                 NNN-NNNNNNNNA-TCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 406 
               
               
                 FB1D1- S. aureus -3 
                 NNN-NNNNNNNNA-TCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 409 
               
               
                 FB1D1- S. aureus -1 
                 NNN-NNNNNNNNGNNCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 403 
               
               
                 FB1D1- S. aureus -5 
                 NNN-NNNNNNNNNNNCNATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAG 
                 409 
               
               
                   
                 * ******************** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 465 
               
               
                 FB1D1-neg-control-5 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 458 
               
               
                 FB1D1-neg-control-2 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 470 
               
               
                 FB1D1- S. cerevisiae -5 
                 CAACGAATACGATCCTATNAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 465 
               
               
                 FB1D1- S. cerevisiae -1 
                 CAACGAATACGATCCTATNAAAGATAAAACATAAATAAACNGTCTTGATTATATTCTGGG 
                 471 
               
               
                 FB1D1- S. cerevisiae -3 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 473 
               
               
                 FB1D1- S. cerevisiae -2 
                 CAACGAATACNATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 472 
               
               
                 FB1D1- S. cerevisiae -4 
                 CAACGAATACGATCCTATNAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 462 
               
               
                 FB1D1-neg-control-1 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 470 
               
               
                 FB1D1-neg-control-3 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 478 
               
               
                 FB1D1- S. enterica -5 
                 CAANNNNNNCGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 473 
               
               
                 FB1D1- S. enterica -4 
                 CAANNNNNNCGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 472 
               
               
                 FB1D1- S. enterica -2 
                 CAACNNANNCNATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 469 
               
               
                 FB1D1- S. enterica -3 
                 CAANNNANNCGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 462 
               
               
                 FB1D1- S. enterica -1 
                 CAACNAANACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 463 
               
               
                 FB1D1- S. aureus -4 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 458 
               
               
                 FB1D1- S. aureus -2 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 466 
               
               
                 FB1D1- S. aureus -3 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 469 
               
               
                 FB1D1- S. aureus -1 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 463 
               
               
                 FB1D1- S. aureus -5 
                 CAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGG 
                 469 
               
               
                   
                 * ******* ********************* ******************* 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCAT-TA 
                 524 
               
               
                 FB1D1-neg-control-5 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCAT-TA 
                 517 
               
               
                 FB1D1-neg-control-2 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCAT-TA 
                 529 
               
               
                 FB1D1- S. cerevisiae -5 
                 TATTAAANNCNCNGNCNGAACAAATATATGCTTTGTNNNNNNTNNNGCCTTNNNNNN-GN 
                 524 
               
               
                 FB1D1- S. cerevisiae -1 
                 TATTAAANNCNNNGNNAGAACAAATATATGCTTTNNNNNNNNTCNNGNCNNNNNNNN-NN 
                 530 
               
               
                 FB1D1- S. cerevisiae -3 
                 TATTAAAGNCNCAGNCAGAACAAATATATGCTTTGTNNCTNNNCNTGCCTTCTTNNN-NN 
                 532 
               
               
                 FB1D1- S. cerevisiae -2 
                 TATTAAANNNNNNGNCAGAACAAATATATGCTTTGNNNNNTNNCNTGNNNNCNNNNG-GN 
                 531 
               
               
                 FB1D1- S. cerevisiae -4 
                 TATTAAANNNNNNGTCAGAACAAATATATGCTTTGTNNNNNNNCNNNCCTTCTNNNN-GN 
                 521 
               
               
                 FB1D1-neg-control-1 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCATTAC 
                 530 
               
               
                 FB1D1-neg-control-3 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCNNNNNNGT-TA 
                 537 
               
               
                 FB1D1- S. enterica -5 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTNNNNNGCCTTCTTCAN-NN 
                 532 
               
               
                 FB1D1- S. enterica -4 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTNNNNNGCCTTCTTCAT-NN 
                 531 
               
               
                 FB1D1- S. enterica -2 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTNNNNNGCCTTCTTCAN-NN 
                 528 
               
               
                 FB1D1- S. enterica -3 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTNNNNNGCCTTCTTCAT-NN 
                 521 
               
               
                 FB1D1- S. enterica -1 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTNCNNGCCTTCTTCAT-NN 
                 522 
               
               
                 FB1D1- S. aureus -4 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCAT-TN 
                 517 
               
               
                 FB1D1- S. aureus -2 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCNT-TA 
                 525 
               
               
                 FB1D1- S. aureus -3 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCAT-TA 
                 528 
               
               
                 FB1D1- S. aureus -1 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCAT-NN 
                 522 
               
               
                 FB1D1- S. aureus -5 
                 TATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCAT-TA 
                 528 
               
               
                   
                 ******* ***************** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 CCAANNGNNTNNNCNNNNNNNNNNAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 584 
               
               
                 FB1D1-neg-control-5 
                 CCNANNNNNNNNNNNNNNNNNNTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 577 
               
               
                 FB1D1-neg-control-2 
                 CCAACTGCTTNNNCGGCCNCNTTNAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 589 
               
               
                 FB1D1- S. cerevisiae -5 
                 NNNNNNNNNNNNNCGGCCANNNNNNNAGAACTTGTGNNNNNATAAGAAGATATTTTATTC 
                 584 
               
               
                 FB1D1- S. cerevisiae -1 
                 NNNNNNNNNNNNNNGGCCACATTAAGAGAACTTGTNNNNNNNTAAGAAGATATTTTATTC 
                 590 
               
               
                 FB1D1- S. cerevisiae -3 
                 NNNNNNNNNNNNNNGGCCACNNNNNNAGAACTTGNGGNGNNATAAGAAGATATTTTATTC 
                 592 
               
               
                 FB1D1- S. cerevisiae -2 
                 NNNNNNNNNNNNNNGGCCNCNNNNNGAGAACTTGTNNNNNNNTAAGAAGATATTTTATTC 
                 591 
               
               
                 FB1D1- S. cerevisiae -4 
                 NNNNNNNNNNNNNNGGCCNNNNNNNGAGAACTTGTNNNNNNNTAAGAAGATATTTTATTC 
                 581 
               
               
                 FB1D1-neg-control-1 
                 NNNNNNNNNNCGCGGGCNNNNNNAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 590 
               
               
                 FB1D1-neg-control-3 
                 CNNNNTGNTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 597 
               
               
                 FB1D1- S. enterica -5 
                 NNNACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 592 
               
               
                 FB1D1- S. enterica -4 
                 NNNNNTGCTTCCGCGGNNACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 591 
               
               
                 FB1D1- S. enterica -2 
                 NNNANNGCTNNNNNGGCCACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 588 
               
               
                 FB1D1- S. enterica -3 
                 NNNNNTGNTTCCGCGGNCACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 581 
               
               
                 FB1D1- S. enterica -1 
                 NNNNNNGNTTCCGCGNNNNCATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTC 
                 582 
               
               
                 FB1D1- S. aureus -4 
                 NNNNNNGNTNCNGCGGCCACATTAAGAGAACTTGNGNTAAGATAAGAAGATATTTTATTC 
                 577 
               
               
                 FB1D1- S. aureus -2 
                 CCAACTGCTTCCGCGGCCACATTAAGAGAACTTGNGNTAAGATAAGAAGATATTTTATTC 
                 585 
               
               
                 FB1D1- S. aureus -3 
                 CCAACTGCTTCCGCGGCCACATTAAGAGAACTTGNGGTAAGATAAGAAGATATTTTATTC 
                 588 
               
               
                 FB1D1- S. aureus -1 
                 NNNNNTGCTTCCGCGGCCACATTAAGAGAACTTGGGGTAAGATAAGAAGATATTTTATTC 
                 582 
               
               
                 FB1D1- S. aureus -5 
                 NNNNCNGCNNNNNNGNCCACATTAAGAGAACTTGNGGTAAGATAAGAAGATATTTTATTC 
                 588 
               
               
                   
                 ******** ****************** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 644 
               
               
                 FB1D1-neg-control-5 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 637 
               
               
                 FB1D1-neg-control-2 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 649 
               
               
                 FB1D1- S. cerevisiae -5 
                 GNTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 644 
               
               
                 FB1D1- S. cerevisiae -1 
                 GNTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 650 
               
               
                 FB1D1- S. cerevisiae -3 
                 GNTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 652 
               
               
                 FB1D1- S. cerevisiae -2 
                 GNNCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 651 
               
               
                 FB1D1- S. cerevisiae -4 
                 GNTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 641 
               
               
                 FB1D1-neg-control-1 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 650 
               
               
                 FB1D1-neg-control-3 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 657 
               
               
                 FB1D1- S. enterica -5 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTNNNNNNNAGGCGGTTAATTG 
                 652 
               
               
                 FB1D1- S. enterica -4 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATANTCTGCATTNNANNNNAGGCGGTTAATTG 
                 651 
               
               
                 FB1D1- S. enterica -2 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATANTCTGCATTTNNNNNNAGGCGGTTAATTG 
                 648 
               
               
                 FB1D1- S. enterica -3 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTNNNNNNAGGCGGTTAATTG 
                 641 
               
               
                 FB1D1- S. enterica -1 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTNNNNNGAGGCGGTTAATTG 
                 642 
               
               
                 FB1D1- S. aureus -4 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 637 
               
               
                 FB1D1- S. aureus -2 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 645 
               
               
                 FB1D1- S. aureus -3 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 648 
               
               
                 FB1D1- S. aureus -1 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 642 
               
               
                 FB1D1- S. aureus -5 
                 GTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTG 
                 648 
               
               
                   
                 * **************************** ******** ************* 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 704 
               
               
                 FB1D1-neg-control-5 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 697 
               
               
                 FB1D1-neg-control-2 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 709 
               
               
                 FB1D1- S. cerevisiae -5 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 704 
               
               
                 FB1D1- S. cerevisiae -1 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 710 
               
               
                 FB1D1- S. cerevisiae -3 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 712 
               
               
                 FB1D1- S. cerevisiae -2 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 711 
               
               
                 FB1D1- S. cerevisiae -4 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 701 
               
               
                 FB1D1-neg-control-1 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 710 
               
               
                 FB1D1-neg-control-3 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 717 
               
               
                 FB1D1- S. enterica -5 
                 CANATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 712 
               
               
                 FB1D1- S. enterica -4 
                 CANATATAATTGGTAGTGAAAAGGGNCNNTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 711 
               
               
                 FB1D1- S. enterica -2 
                 CANATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 708 
               
               
                 FB1D1- S. enterica -3 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 701 
               
               
                 FB1D1- S. enterica -1 
                 CAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 702 
               
               
                 FB1D1- S. aureus -4 
                 CAGATATAATTGGTAGTGAAAAGGNGNNTTGCTATGGTCACCGTGAAGNGAGTACAGCAG 
                 697 
               
               
                 FB1D1- S. aureus -2 
                 CAGATATAATTGGTAGTGAAAAGGNGCGTTGCTATGGTCACCGTGAAGNGAGTACAGCAG 
                 705 
               
               
                 FB1D1- S. aureus -3 
                 CAGATATAATTGGTAGTGAAAAGGNNNNTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 708 
               
               
                 FB1D1- S. aureus -1 
                 CAGATATAATTGGTAGTGAAAAGGNNNNTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 702 
               
               
                 FB1D1- S. aureus -5 
                 CAGATATAATTGGTAGTGAAAAGGNNNNTTGCTATGGTCACCGTGAAGCGAGTACAGCAG 
                 708 
               
               
                   
                 ** ********************* ******************* *********** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 764 
               
               
                 FB1D1-neg-control-5 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 757 
               
               
                 FB1D1-neg-control-2 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGNTTTAGTCG 
                 769 
               
               
                 FB1D1- S. cerevisiae -5 
                 CACAAGAATGTGTGCCGNTCTCAGTTAATATTGTTTGAATATGGNAACCTGTTTTAGTCG 
                 764 
               
               
                 FB1D1- S. cerevisiae -1 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTNTGAATATGGTAACCTGNTTTAGTCG 
                 770 
               
               
                 FB1D1- S. cerevisiae -3 
                 CACAAGANNGTGTGCCGTTCTCAGTTAATATNGNNNGAATATGGTAACCTGNTTTAGTCG 
                 772 
               
               
                 FB1D1- S. cerevisiae -2 
                 CACANGANNGTGTGCCGTTCTCAGTTAATATTGNTTGAATATGGTAACCTGTTTTAGTCG 
                 771 
               
               
                 FB1D1- S. cerevisiae -4 
                 CACAANANNGNGTGCCGTTCTCAGTTNNNNNNGTTTGAATATGGTAACCTGTTTTAGTCG 
                 761 
               
               
                 FB1D1-neg-control-1 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 770 
               
               
                 FB1D1-neg-control-3 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 777 
               
               
                 FB1D1- S. enterica -5 
                 CACAAGAATGTGNGCCGTTCTCNNNNNNTATTGTTTGAATATNNNNACCTGTTTTAGTCG 
                 772 
               
               
                 FB1D1- S. enterica -4 
                 CACAAGAATGTGNGCCGTTCTCNNNNNNTATTGTTTGAATATGNNNACCTGNTTTAGTCG 
                 771 
               
               
                 FB1D1- S. enterica -2 
                 CACAAGAATGNGTGCCGTTCTCNGNNNNTATTGTTTGAATATGGNAACCTGTTTTAGTCG 
                 768 
               
               
                 FB1D1- S. enterica -3 
                 CACAAGAATGTGTGCCGTTCTCNNNNNNTATTGTTTGAATATGGNAACCTGTTTTAGTCG 
                 761 
               
               
                 FB1D1- S. enterica -1 
                 CACAAGAATGTGTGCCGTTCTCNNNNNNTATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 762 
               
               
                 FB1D1- S. aureus -4 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 757 
               
               
                 FB1D1- S. aureus -2 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 765 
               
               
                 FB1D1- S. aureus -3 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 768 
               
               
                 FB1D1- S. aureus -1 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 762 
               
               
                 FB1D1- S. aureus -5 
                 CACAAGAATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCG 
                 768 
               
               
                   
                 **** * * * **** **** * ****** ***** ******** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 GTTTAAAGGTAAGAAGANCTAACCAAAAACAAC-ACTGCAGTGACTG--ANNGTAGTATT 
                 821 
               
               
                 FB1D1-neg-control-5 
                 GTTTAAAGGNAAGAAGATCTAACCAAAAACAAC-ACTGCAGTGACTG--ATTG------- 
                 807 
               
               
                 FB1D1-neg-control-2 
                 GTTTAAAGGTAAGAAGATCTAACCNAAAACAAC-ACTGCAGTGACTG--ATT-------- 
                 818 
               
               
                 FB1D1- S. cerevisiae -5 
                 GTTTAAAGGTAAGAAGATCTAACCNAAAACAAN-NNNNNNNGNCNNN--NNGNNGNNNNN 
                 821 
               
               
                 FB1D1- S. cerevisiae -1 
                 GTTTAAAGGTAAGAAGATCTAACCAAAAACAAC-ACTGCNNGNCNGN--NNNNNNGGNNN 
                 827 
               
               
                 FB1D1- S. cerevisiae -3 
                 GTTTAAAGGTAAGAAGANCTAACCAAAAACAAC-ACTGCNNNNNNNN--NNGGGGGNNNN 
                 829 
               
               
                 FB1D1- S. cerevisiae -2 
                 GTTTAAAGGTAAGAAGANCTAACCNAAAACAAC-ACTGCNNNNNNGN--GGGGGGNNNNN 
                 828 
               
               
                 FB1D1- S. cerevisiae -4 
                 GTTTAAAGGNAAGAAGATCTAACCAAAAACAAC-ACTGCANTGNCNG--NGNNGGNNNNN 
                 818 
               
               
                 FB1D1-neg-control-1 
                 GTTTAAAGGTAAGAAGATCTAACCNAAAACAAC-ACTGCAGTGACTG--A---------- 
                 817 
               
               
                 FB1D1-neg-control-3 
                 GTTTAAAGGTAAGAAGATCTANNNNNNNNNNNNCACTGCAGNGACTG--ANNGNAGTATT 
                 835 
               
               
                 FB1D1- S. enterica -5 
                 GTTTAANNNNNNNNNNNTCTAACCNAAAAC-AACACTGCAGNGACTG--ANNGTAGTATT 
                 829 
               
               
                 FB1D1- S. enterica -4 
                 GTTTAANNNNNNNNNNNTCTAACNNAAAAC-AACACTGCNGNGACTG--ANTGNNNNATT 
                 828 
               
               
                 FB1D1- S. enterica -2 
                 GNTTAANNNNNNNNNNNTCTAACCAAAAAC-AACACTGNNGNGACTG--ANTGTAGTATT 
                 825 
               
               
                 FB1D1- S. enterica -3 
                 GTTTAAANGNNNNNNNT-CTAACCNAAAAC-AACACTGCAGTGACNG--ANNNNNGTANT 
                 817 
               
               
                 FB1D1- S. enterica -1 
                 GTTTAANNNNNNNNNNNTCTAACCAAAAAC-AACACTGCAGNGGNNNGGNNNGTAGTATT 
                 821 
               
               
                 FB1D1- S. aureus -4 
                 GTTTAAAGGTAAGAAGATCTAACCAAAAAC-AACACTGNNNNGNNNG--ATTGTAGNNNN 
                 814 
               
               
                 FB1D1- S. aureus -2 
                 GTTTAAAGGTAAGAAGATCTAACCAAAAAC-AACACNGCAGTGACTG--ATTGNNGNNNN 
                 822 
               
               
                 FB1D1- S. aureus -3 
                 GNTTAAAGGTAAGAAGATCTAACNNAAANNCAACACTGCANNGACTG--NNNNNNNNNAT 
                 826 
               
               
                 FB1D1- S. aureus -1 
                 GTTTAAAGGTNAGAAGATCTAACCAAAAAC-AACACTGCAGNGACTG--ATTGTAGTATT 
                 819 
               
               
                 FB1D1- S. aureus -5 
                 GTTTAAAGGTAAGAAGATCTAACCAAAANC-AACACTGCAGTGACNG--NNNNGNNGNAT 
                 825 
               
               
                   
                 * **** *** 
                   
               
               
                   
               
               
                 FB1D1-neg-control-4 
                 ------------------------------------------------------------ 
                   
               
               
                 FB1D1-neg-control-5 
                 ------------------------------------------------------------ 
                   
               
               
                 FB1D1-neg-control-2 
                 ------------------------------------------------------------ 
                   
               
               
                 FB1D1- S. cerevisiae -5 
                 NNNNNNTT--A--CTTNNNNNNNATTTTGGNNGNA--AACATCAACGG-NNNNNNTCAAC 
                 874 
               
               
                 FB1D1- S. cerevisiae -1 
                 NNNNNNNNTTA--CTNNNNNNNNATTTTGGNN-TA--AACATCAACGG-NNNNNNNCANC 
                 881 
               
               
                 FB1D1- S. cerevisiae -3 
                 NNNNNNNTT-A--CTNNNNGNNNNTTNNNGGNGNA--AACATCNACGN-NNNNNNNCAAC 
                 883 
               
               
                 FB1D1- S. cerevisiae -2 
                 NNNNNNNNT-A--CTTNNNNNNNNNNNNNNNNNN----ACATCNNCGN-NNNNNNNCAAC 
                 880 
               
               
                 FB1D1- S. cerevisiae -4 
                 NNNNNNNNNTA--CTTANNNNNNNNNNNNNNGGNGTAAACATCAACGN-NNNNNTCNACC 
                 875 
               
               
                 FB1D1-neg-control-1 
                 ------------------------------------------------------------ 
                   
               
               
                 FB1D1-neg-control-3 
                 TATTTTTTT-A--CTTAATCTNNATTTTGGTGNAA---ACATCNACGG-CNN-------- 
                 880 
               
               
                 FB1D1- S. enterica -5 
                 TATTTTTNNNN--CNNNNNCTTNANTTT-GGTGTA--AACATCAACGG-CGCACTT---- 
                 879 
               
               
                 FB1D1- S. enterica -4 
                 TATTTTTTTAC--NNNNNNNNNNNTTT--GGTGTA--AACATCAACGG-CGCACTTCNN- 
                 880 
               
               
                 FB1D1- S. enterica -2 
                 TATTTTNNNNN--NNNNNCTTAATTTT--GGTGNA--AACATCNACGG-CGCACTTCAAC 
                 878 
               
               
                 FB1D1- S. enterica -3 
                 TATTTTTTTAC--TNNNNNNNNNNNNTTTGGTGNA--AACATCAACGG-CGCACTTC--- 
                 869 
               
               
                 FB1D1- S. enterica -1 
                 TATTTTNNNNN--NNNNNNCTTAATTTT-GGNGNA--AACATCNACGG-CGCACNTNNN- 
                 874 
               
               
                 FB1D1- S. aureus -4 
                 NANNNNNTTT--ACNTAATCNTANTTTT-GGTGNA--AACATCAACGG-CGCACTTCAAC 
                 868 
               
               
                 FB1D1- S. aureus -2 
                 NNNNNTTTTTT-ANNTNATCTTAATTTT-GGTGTA--AACATCNACGG-CGCACTTCAA- 
                 876 
               
               
                 FB1D1- S. aureus -3 
                 TNNNNNNTTTTTACTTAATCTTAATTTT-GGTGTA--AACATCAACNGGCGCACTTN--- 
                 880 
               
               
                 FB1D1- S. aureus -1 
                 TATTTTTNNN---NNNNNNCTNNATTTT-GGTGTA--AACATCAACGG-CGCACNN---- 
                 868 
               
               
                 FB1D1- S. aureus -5 
                 TTATTTTTNN--NNNNNNNNTTAATTTT-GGNGNA--AACATCAACGG-CGCACTTCN-- 
                 877 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
             
           
               
                 TABLE 3B 
               
               
                   
               
               
                 CLUSTAL 2.0.11 multiple sequence alignment of all sequence 
               
               
                 reads from single primer FP5 of Example 1. 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 26 
                 -----------NNNNNNNATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 49 
               
               
                 FP5-neg-control-4 
                   
                   
               
               
                 SEQ ID NO: 27 
                 ---------NNNNTTNNNATTACTGTTAATGNTGCTACTACTGCTGACAATGCTGCTGCT 
                 51 
               
               
                 FP5-neg-control-5 
                   
                   
               
               
                 SEQ ID NO: 28 
                 ---------NNGNNNNTGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 51 
               
               
                 FP5-neg-control-3 
                   
                   
               
               
                 SEQ ID NO: 29 
                 --------NCTGGTNNNNNNNACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 52 
               
               
                 FP5-neg-control-2 
                   
                   
               
               
                 SEQ ID NO: 30 
                 --------NCNGNNNATGANTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 52 
               
               
                 FP5-neg-control-1 
                   
                   
               
               
                 SEQ ID NO: 31 
                 --------NCCNGNNNNNNNTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 52 
               
               
                 FP5- S. aureus -4 
                   
                   
               
               
                 SEQ ID NO: 32 
                 --------------------TACTGTTAATGTTGNNNCNNNNGCTGACAATGCTGCTGCT 
                 40 
               
               
                 FP5- S. aureus -5 
                   
                   
               
               
                 SEQ ID NO: 33 
                 -NNNGCNGCCNGGTTNTGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 59 
               
               
                 FP5- S. aureus -2 
                   
                   
               
               
                 SEQ ID NO: 34 
                 ------NNNCTGGTTNTGANTACTGNNNNNGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 54 
               
               
                 FP5- S. aureus -3 
                   
                   
               
               
                 SEQ ID NO: 35 
                 -----NNNNCTGGTTNTGANTACTGTTAANGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 55 
               
               
                 FP5- S. aureus -1 
                   
                   
               
               
                 SEQ ID NO: 36 
                 ------------NTTNTGATTACTGTTNNNNNTGCTACTACTGCTGACAATGCTGCTGCT 
                 48 
               
               
                 FP5- S. enterica -2 
                   
                   
               
               
                 SEQ ID NO: 37 
                 -----NNNNNNGGTTNTGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 55 
               
               
                 FP5- S. enterica -3 
                   
                   
               
               
                 SEQ ID NO: 38 
                 ---------CTGNNNNTGATTACTGTNNNNGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 51 
               
               
                 FP5- S. enterica -1 
                   
                   
               
               
                 SEQ ID NO: 39 
                 --NNNNNNCCTGGTNATGANTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 58 
               
               
                 FP5- S. enterica -4 
                   
                   
               
               
                 SEQ ID NO: 40 
                 -------------NNNNNATTNCTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 47 
               
               
                 FP5- S. enterica -5 
                   
                   
               
               
                 SEQ ID NO: 41 
                 -------------NNNNNATNNCTGTTNATGTTGCTNCTACTGCTGACAATGCTGCTGCT 
                 47 
               
               
                 FP5- S. cerevisiae -3 
                   
                   
               
               
                 SEQ ID NO: 42 
                 ------------NTTNNGATTACTGTTAATNNTNNTNCTACTGCTGACAATGCTGCTGCT 
                 48 
               
               
                 FP5- S. cerevisiae -5 
                   
                   
               
               
                 SEQ ID NO: 43 
                 NNNTGNNGCCTGNTTNTGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 60 
               
               
                 FP5- S. cerevisiae -2 
                   
                   
               
               
                 SEQ ID NO: 44 
                 --------CCTGGTTANGANTACTGNTNNNGNTGCTACTACTGCTGACAATGCTGCTGCT 
                 52 
               
               
                 FP5- S. cerevisiae -4 
                   
                   
               
               
                 SEQ ID NO: 45 
                 --------CCTGNNNNNGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 52 
               
               
                 FP5- S. cerevisiae -1 
                   
                   
               
               
                   
                          ***       *    *    ****************** 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 GCTTCNCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 109 
               
               
                 FP5-neg-control-5 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 111 
               
               
                 FP5-neg-control-3 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 111 
               
               
                 FP5-neg-control-2 
                 GCTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 112 
               
               
                 FP5-neg-control-1 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 112 
               
               
                 FP5- S. aureus -4 
                 GCTTCTCCTCNNTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 112 
               
               
                 FP5- S. aureus -5 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 100 
               
               
                 FP5- S. aureus -2 
                 GCTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 119 
               
               
                 FP5- S. aureus -3 
                 GCTTCTCNTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 114 
               
               
                 FP5- S. aureus -1 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 115 
               
               
                 FP5- S. enterica -2 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 108 
               
               
                 FP5- S. enterica -3 
                 GCTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 115 
               
               
                 FP5- S. enterica -1 
                 GCTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 111 
               
               
                 FP5- S. enterica -4 
                 GCTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 118 
               
               
                 FP5- S. enterica -5 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 107 
               
               
                 FP5- S. cerevisiae -3 
                 GCTTCTCCTCNNTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 107 
               
               
                 FP5- S. cerevisiae -5 
                 GCTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 108 
               
               
                 FP5- S. cerevisiae -2 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 120 
               
               
                 FP5- S. cerevisiae -4 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 112 
               
               
                 FP5- S. cerevisiae -1 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 112 
               
               
                   
                 ***** * * * ************************************************ 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 169 
               
               
                 FP5-neg-control-5 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 171 
               
               
                 FP5-neg-control-3 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 171 
               
               
                 FP5-neg-control-2 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 172 
               
               
                 FP5-neg-control-1 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 172 
               
               
                 FP5- S. aureus -4 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 172 
               
               
                 FP5- S. aureus -5 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 160 
               
               
                 FP5- S. aureus -2 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 179 
               
               
                 FP5- S. aureus -3 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 174 
               
               
                 FP5- S. aureus -1 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 175 
               
               
                 FP5- S. enterica -2 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 168 
               
               
                 FP5- S. enterica -3 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 175 
               
               
                 FP5- S. enterica -1 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 171 
               
               
                 FP5- S. enterica -4 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 178 
               
               
                 FP5- S. enterica -5 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 167 
               
               
                 FP5- S. cerevisiae -3 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 167 
               
               
                 FP5- S. cerevisiae -5 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 168 
               
               
                 FP5- S. cerevisiae -2 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 180 
               
               
                 FP5- S. cerevisiae -4 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 172 
               
               
                 FP5- S. cerevisiae -1 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 172 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 229 
               
               
                 FP5-neg-control-5 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 231 
               
               
                 FP5-neg-control-3 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 231 
               
               
                 FP5-neg-control-2 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 232 
               
               
                 FP5-neg-control-1 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 232 
               
               
                 FP5- S. aureus -4 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 232 
               
               
                 FP5- S. aureus -5 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 220 
               
               
                 FP5- S. aureus -2 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 239 
               
               
                 FP5- S. aureus -3 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 234 
               
               
                 FP5- S. aureus -1 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 235 
               
               
                 FP5- S. enterica -2 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 228 
               
               
                 FP5- S. enterica -3 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 235 
               
               
                 FP5- S. enterica -1 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 231 
               
               
                 FP5- S. enterica -4 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 238 
               
               
                 FP5- S. enterica -5 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 227 
               
               
                 FP5- S. cerevisiae -3 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 227 
               
               
                 FP5- S. cerevisiae -5 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 228 
               
               
                 FP5- S. cerevisiae -2 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 240 
               
               
                 FP5- S. cerevisiae -4 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 232 
               
               
                 FP5- S. cerevisiae -1 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 232 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 289 
               
               
                 FP5-neg-control-5 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 291 
               
               
                 FP5-neg-control-3 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 291 
               
               
                 FP5-neg-control-2 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 292 
               
               
                 FP5-neg-control-1 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 292 
               
               
                 FP5- S. aureus -4 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 292 
               
               
                 FP5- S. aureus -5 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 280 
               
               
                 FP5- S. aureus -2 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 299 
               
               
                 FP5- S. aureus -3 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 294 
               
               
                 FP5- S. aureus -1 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 295 
               
               
                 FP5- S. enterica -2 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 288 
               
               
                 FP5- S. enterica -3 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 295 
               
               
                 FP5- S. enterica -1 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 291 
               
               
                 FP5- S. enterica -4 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 298 
               
               
                 FP5- S. enterica -5 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 287 
               
               
                 FP5- S. cerevisiae -3 
                 CAGGCGAGCTGAGGAGNNNTTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 287 
               
               
                 FP5- S. cerevisiae -5 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 288 
               
               
                 FP5- S. cerevisiae -2 
                 CAGGCGAGCTGAGGAGCANTTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 300 
               
               
                 FP5- S. cerevisiae -4 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 292 
               
               
                 FP5- S. cerevisiae -1 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 292 
               
               
                   
                 ****************   ***************************************** 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 349 
               
               
                 FP5-neg-control-5 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 351 
               
               
                 FP5-neg-control-3 
                 GAGAGGAANAAGNCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 351 
               
               
                 FP5-neg-control-2 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 352 
               
               
                 FP5-neg-control-1 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 352 
               
               
                 FP5- S. aureus -4 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 352 
               
               
                 FP5- S. aureus -5 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 340 
               
               
                 FP5- S. aureus -2 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 359 
               
               
                 FP5- S. aureus -3 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 354 
               
               
                 FP5- S. aureus -1 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACCAGCTCTTGTTGTAAACNTT 
                 355 
               
               
                 FP5- S. enterica -2 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 348 
               
               
                 FP5- S. enterica -3 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 355 
               
               
                 FP5- S. enterica -1 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 351 
               
               
                 FP5- S. enterica -4 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 358 
               
               
                 FP5- S. enterica -5 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATT 
                 347 
               
               
                 FP5- S. cerevisiae -3 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 347 
               
               
                 FP5- S. cerevisiae -5 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 348 
               
               
                 FP5- S. cerevisiae -2 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 360 
               
               
                 FP5- S. cerevisiae -4 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACNTN 
                 352 
               
               
                 FP5- S. cerevisiae -1 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 352 
               
               
                   
                 ******** *** ******************************************** * 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 GATCCAACTGGAANNNNNNNNNNGGNNNNNNNNNNNNNCATAAGGCATGATGGTTGCTCA 
                 409 
               
               
                 FP5-neg-control-5 
                 GATCCAACTGGANNGNNNNNNATGGNNNNNNNNNNNTCCATAAGGCATGATGGTTGCTCA 
                 411 
               
               
                 FP5-neg-control-3 
                 GATCCAACTGGAANNNNNNNNNTGNNNNNNNNNNNTTCCATAAGGCATGATGGTTGCTCA 
                 411 
               
               
                 FP5-neg-control-2 
                 GATCCAACTGGNANGNCACNNNNGNNNNNNNAATATTCCATAAGGCATGATGGTTGCTCA 
                 412 
               
               
                 FP5-neg-control-1 
                 GATCCAACTGGAATGTCACTAANGGNNNNNNNATATTCCATAAGGCATGATGGTTGCTCA 
                 412 
               
               
                 FP5- S. aureus -4 
                 GATCCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCA 
                 412 
               
               
                 FP5- S. aureus -5 
                 GATCCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCA 
                 400 
               
               
                 FP5- S. aureus -2 
                 GATCCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCA 
                 419 
               
               
                 FP5- S. aureus -3 
                 GATCCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCA 
                 414 
               
               
                 FP5- S. aureus -1 
                 GNTNCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCA 
                 415 
               
               
                 FP5- S. enterica -2 
                 GATCCAACTGGAATGTCACTAANNNNNNNNNNATATTCCATAAGGCATGATGGTTGCTCA 
                 408 
               
               
                 FP5- S. enterica -3 
                 GATCCAACTGGAATGTCACTAANNNNNNNNNNNTATTCCATAAGGCATGATGGTTGCTCA 
                 415 
               
               
                 FP5- S. enterica -1 
                 GATCCAACTGGAATGTCACTAANNNNNNNNAN-TATTCCATAAGGCATGATGGTTGCTCA 
                 410 
               
               
                 FP5- S. enterica -4 
                 GATCCAACTGGAATGTCACTAANNNNNNNNAA-TATTCCATAAGGCATGATGGTTGCTCA 
                 417 
               
               
                 FP5- S. enterica -5 
                 GATCCAACTGGAATGTCACTAANNNNNNNNNAATATTCCATAAGGCATGATGGTTGCTCA 
                 407 
               
               
                 FP5- S. cerevisiae -3 
                 NNNNNNNNTGGNATGTCACTAATGGCGAATNNNNANNNNNTAAGGNNTGATGGTTGCTCA 
                 407 
               
               
                 FP5- S. cerevisiae -5 
                 NNNNNNNNNGGAATGTCACTAATGGCGAATCNNNNNNNCNTAAGGNNNGNTGGTTGCTCA 
                 408 
               
               
                 FP5- S. cerevisiae -2 
                 NNNNNNNNNNNNANGTCACTAATGGCGAANNNNNANNNNNTAAGGNNTGATGGTTGCTCA 
                 420 
               
               
                 FP5- S. cerevisiae -4 
                 NNNNNNNNNGGAATGTCACTAATGGCGAATNNNNNNNNNNTAAGGCATGATGGTTGCTCA 
                 412 
               
               
                 FP5- S. cerevisiae -1 
                 NNNNNNNNNGGAATGTCACTAATGGCGAANNNNNNNNNNNTAAGGNATGATGGTTGCTCA 
                 412 
               
               
                   
                                                         *****   * ********** 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 469 
               
               
                 FP5-neg-control-5 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 471 
               
               
                 FP5-neg-control-3 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 471 
               
               
                 FP5-neg-control-2 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 472 
               
               
                 FP5-neg-control-1 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 472 
               
               
                 FP5- S. aureus -4 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 472 
               
               
                 FP5- S. aureus -5 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 460 
               
               
                 FP5- S. aureus -2 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 479 
               
               
                 FP5- S. aureus -3 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 474 
               
               
                 FP5- S. aureus -1 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 475 
               
               
                 FP5- S. enterica -2 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 468 
               
               
                 FP5- S. enterica -3 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 475 
               
               
                 FP5- S. enterica -1 
                 GAGGCNGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 470 
               
               
                 FP5- S. enterica -4 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 477 
               
               
                 FP5- S. enterica -5 
                 GAGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCT 
                 467 
               
               
                 FP5- S. cerevisiae -3 
                 GAGGCAGGAGAAGAGCNNNGNATACNNNNNTATAAAAGATAAAACATAAATAAACAGTCT 
                 467 
               
               
                 FP5- S. cerevisiae -5 
                 GAGGCAGGAGAAGAGCNNNGNATACGNNNNTATAAAAGATAAAACATAAATAAACAGTCT 
                 468 
               
               
                 FP5- S. cerevisiae -2 
                 GAGGCAGGAGAAGAGNNNNGNATACNNNNNNATAAAAGATAAAACATAAATAAACAGTCT 
                 480 
               
               
                 FP5- S. cerevisiae -4 
                 GAGGCAGGAGAAGAGCAACGAATACNNNNNNATAAAAGATAAAACATAAATAAACAGTCT 
                 472 
               
               
                 FP5- S. cerevisiae -1 
                 GAGGCAGGAGAAGAGCAACGAATACGANGCNNTAAAAGATAAAACATAAATAAACAGTCT 
                 472 
               
               
                   
                 ***** *********    * ****       **************************** 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 529 
               
               
                 FP5-neg-control-5 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 531 
               
               
                 FP5-neg-control-3 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 531 
               
               
                 FP5-neg-control-2 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 532 
               
               
                 FP5-neg-control-1 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 532 
               
               
                 FP5- S. aureus -4 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 532 
               
               
                 FP5- S. aureus -5 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 520 
               
               
                 FP5- S. aureus -2 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 539 
               
               
                 FP5- S. aureus -3 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 534 
               
               
                 FP5- S. aureus -1 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 535 
               
               
                 FP5- S. enterica -2 
                 TGATTATATTCTGGGTATTAAAGCCACAANNNNNNNNNNNNTNTGCTTTGTATCTTTNNN 
                 528 
               
               
                 FP5- S. enterica -3 
                 TGATTATATTCTGGGTATTAAAGCCACANNNNNNNNNNNNNTATGCTTTGTATCTTNNNN 
                 535 
               
               
                 FP5- S. enterica -1 
                 TGATTATATTCTGGGTATTAAAGCCACANNNNNNNNNGANNTATGCTTTGTATCTTNNNN 
                 530 
               
               
                 FP5- S. enterica -4 
                 TGATTATATTCTGGGTATTAAAGCCACAANGNGNNNNNANNTATGCTTTGTATCTTNNNN 
                 537 
               
               
                 FP5- S. enterica -5 
                 TGATTATATTCTGGGTATTAAAGCCACANNNNNNNNNGANNTATGCTTTGTATCTTTTCT 
                 527 
               
               
                 FP5- S. cerevisiae -3 
                 TGATTATATTCTGGGTATTAAAGCCNCAATCNNANNAAATATATGCTTTGTATCTTTTCT 
                 527 
               
               
                 FP5- S. cerevisiae -5 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 528 
               
               
                 FP5- S. cerevisiae -2 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 540 
               
               
                 FP5- S. cerevisiae -4 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 532 
               
               
                 FP5- S. cerevisiae -1 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 532 
               
               
                   
                 ************************* **             * ************* 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTANNAGAACTTGTGGTAAGATAAG 
                 589 
               
               
                 FP5-neg-control-5 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 591 
               
               
                 FP5-neg-control-3 
                 TGCCTTCTTCATTACCAACTGNTTCCGCGGNCACNTTAAGAGAACTTGTGGTAAGATAAG 
                 591 
               
               
                 FP5-neg-control-2 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 592 
               
               
                 FP5-neg-control-1 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 592 
               
               
                 FP5- S. aureus -4 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 592 
               
               
                 FP5- S. aureus -5 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 580 
               
               
                 FP5- S. aureus -2 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 599 
               
               
                 FP5- S. aureus -3 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 594 
               
               
                 FP5- S. aureus -1 
                 TGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 595 
               
               
                 FP5- S. enterica -2 
                 NGCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAN 
                 588 
               
               
                 FP5- S. enterica -3 
                 NGNCNTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 595 
               
               
                 FP5- S. enterica -1 
                 NGNCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 590 
               
               
                 FP5- S. enterica -4 
                 NNNCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAN 
                 597 
               
               
                 FP5- S. enterica -5 
                 TGNCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 587 
               
               
                 FP5- S. cerevisiae -3 
                 TGCCTNNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 587 
               
               
                 FP5- S. cerevisiae -5 
                 TGCCTNNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGNAAGATAAG 
                 588 
               
               
                 FP5- S. cerevisiae -2 
                 TGCCTNNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 600 
               
               
                 FP5- S. cerevisiae -4 
                 TGCCTTNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGNTAAGATAAG 
                 592 
               
               
                 FP5- S. cerevisiae -1 
                 TGCCTTNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 592 
               
               
                   
                    *                   ******* *** ***  **********  ******* 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 649 
               
               
                 FP5-neg-control-5 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 651 
               
               
                 FP5-neg-control-3 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 651 
               
               
                 FP5-neg-control-2 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 652 
               
               
                 FP5-neg-control-1 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 652 
               
               
                 FP5- S. aureus -4 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 652 
               
               
                 FP5- S. aureus -5 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 640 
               
               
                 FP5- S. aureus -2 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 659 
               
               
                 FP5- S. aureus -3 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 654 
               
               
                 FP5- S. aureus -1 
                 AAGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 655 
               
               
                 FP5- S. enterica -2 
                 AANATATTTTATTCNNNNNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 648 
               
               
                 FP5- S. enterica -3 
                 AAGATATTTTATTCNNNNNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 655 
               
               
                 FP5- S. enterica -1 
                 AAGATATTTTATTCNNNNNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 650 
               
               
                 FP5- S. enterica -4 
                 ANNANNTTTTATTCGNNNNGNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 657 
               
               
                 FP5- S. enterica -5 
                 AAGATATTTTATTCGNNCNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 647 
               
               
                 FP5- S. cerevisiae -3 
                 AAGATATTTTATTCNNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 647 
               
               
                 FP5- S. cerevisiae -5 
                 AAGATATTTTATTCNNNNNNNTNNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 648 
               
               
                 FP5- S. cerevisiae -2 
                 AAGATATTTTATTCGNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 660 
               
               
                 FP5- S. cerevisiae -4 
                 AAGATATTTTATTCNNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 652 
               
               
                 FP5- S. cerevisiae -1 
                 AAGATATTTTATTCGNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 652 
               
               
                   
                 *  *  ********       *       ******************************* 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 709 
               
               
                 FP5-neg-control-5 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 711 
               
               
                 FP5-neg-control-3 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 711 
               
               
                 FP5-neg-control-2 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 712 
               
               
                 FP5-neg-control-1 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 712 
               
               
                 FP5- S. aureus -4 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 712 
               
               
                 FP5- S. aureus -5 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 700 
               
               
                 FP5- S. aureus -2 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 719 
               
               
                 FP5- S. aureus -3 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 714 
               
               
                 FP5- S. aureus -1 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 715 
               
               
                 FP5- S. enterica -2 
                 GAGGCGGTTAATTGCAGATATAATTNNNNNNNNNNNNGGTCGTTGCTATGGTCACCGTGA 
                 708 
               
               
                 FP5- S. enterica -3 
                 GAGGCGGTTAATTGCAGATATAATTGGNNNNNNNNNNGNTCGTTGCTATGGTCACCGTGA 
                 715 
               
               
                 FP5- S. enterica -1 
                 GAGGCGGTTAATTGCAGATATAATTGGNNGTNNNNNNGNNCGTTGCTATGGTCACCGTGA 
                 710 
               
               
                 FP5- S. enterica -4 
                 GAGGCGGNTAATTGCAGATATAATTGGNNGTNNNNNNGGTCGTTGCTATGGTCACCGTGA 
                 717 
               
               
                 FP5- S. enterica -5 
                 GAGGCGGTTAATTGCAGATATAATTGGNNGTNNNNNNGGTCGTTGCTATGGTCACCGTGA 
                 707 
               
               
                 FP5- S. cerevisiae -3 
                 GAGGCGGTTAANTGCAGATATAATTGNNNNNNNNNNNGGTCGTTGCTATGGTCACCGTGA 
                 707 
               
               
                 FP5- S. cerevisiae -5 
                 GAGGCGGTTAANTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 708 
               
               
                 FP5- S. cerevisiae -2 
                 GANGCGGNTAANTGNANATATNATTGGNNGNGAAA------------------------- 
                 695 
               
               
                 FP5- S. cerevisiae -4 
                 GAGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 712 
               
               
                 FP5- S. cerevisiae -1 
                 GAGGCGGTTNNNTGNAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 712 
               
               
                   
                 ** **** *   ** * **** *** 
                   
               
               
                   
               
               
                 FP5-neg-control-4 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGTTAATATTGNTTGAATATGGTA 
                 769 
               
               
                 FP5-neg-control-5 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGNTCTCAGTTAATATTGTTTGAATATGGTA 
                 771 
               
               
                 FP5-neg-control-3 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGTTAATATTGNTTGAATATGGTA 
                 771 
               
               
                 FP5-neg-control-2 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGTTAATATTGNTTGAATATGGNA 
                 772 
               
               
                 FP5-neg-control-1 
                 AGCGAGTACAGCAGCACAAGAATGNGTGCCGTTCTCAGTTAATATTGTTTGAATATGGNA 
                 772 
               
               
                 FP5- S. aureus -4 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGTNNGNNNNNNNNGAATATGGTA 
                 772 
               
               
                 FP5- S. aureus -5 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNNNNNNNNNNGAATATGGTA 
                 760 
               
               
                 FP5- S. aureus -2 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNNNNNNNNNNGAATATGGTA 
                 779 
               
               
                 FP5- S. aureus -3 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNGNANNNNNNGAATATGGTA 
                 774 
               
               
                 FP5- S. aureus -1 
                 AGCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNNNNNNNNNNGAATATGGTA 
                 775 
               
               
                 FP5- S. enterica -2 
                 AGCGAGTNNNGCNNNNNNAGANTGNGNGGNNGNNNNNNNNNATATTGNTTGAATATGGNN 
                 768 
               
               
                 FP5- S. enterica -3 
                 AGCGAGTACAGCAGCACAAGAATGTGTGNNNNNNNNNNNNAATATTGNTTGAATATGGTA 
                 775 
               
               
                 FP5- S. enterica -1 
                 AGCGAGTACNNCAGCACAAGAATGTGTGNNNNNNNNNNNTAATATNGTTTGAATATGGTA 
                 770 
               
               
                 FP5- S. enterica -4 
                 AGCGAGTACAGCAGCACAAGAATGTGTGNNGNNNNNNNNTAATATTGTTTGAATATGGTA 
                 777 
               
               
                 FP5- S. enterica -5 
                 AGCGAGTACAGCAGCACAAGAATGTGTNNNNNNNNNNNNTAATATTGTTTGAATATGGTA 
                 767 
               
               
                 FP5- S. cerevisiae -3 
                 AGCGAGTACAGCNNNNNNNNNATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTA 
                 767 
               
               
                 FP5- S. cerevisiae -5 
                 AGCGAGTACNNNGNNNNNNNNATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTA 
                 768 
               
               
                 FP5- S. cerevisiae -2 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. cerevisiae -4 
                 AGCGAGTACNNNNNNNNNNNNATGTGTGCCGTTCTCAGTTAATATTGNNTGAATATGGTA 
                 772 
               
               
                 FP5- S. cerevisiae -1 
                 AGCGAGTACAGCNGNNNNNNNATGTGTGCCGTTCTCAGTTAATATTGTTTGAATANGGNN 
                 772 
               
               
                   
               
               
                 FP5-neg-control-4 
                 ACCTGTTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCNAAAACAACACTGCAGTGACTG 
                 829 
               
               
                 FP5-neg-control-5 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCNAAAACAACACTGCAGTGACTG 
                 831 
               
               
                 FP5-neg-control-3 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGTGACTG 
                 831 
               
               
                 FP5-neg-control-2 
                 ACCTGNTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCNAAAACAACACTGCAGNGACTG 
                 832 
               
               
                 FP5-neg-control-1 
                 ACCTGNTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGTGACTG 
                 832 
               
               
                 FP5- S. aureus -4 
                 ACCTGNTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAACNNNNNNGCAGTGACTG 
                 832 
               
               
                 FP5- S. aureus -5 
                 ACCTGNTTTAGTCGGNTTAAAGGNAAGAAGANCTAACCAAAAACNNN------------- 
                 807 
               
               
                 FP5- S. aureus -2 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAANNNNNNTGCAGTGACTG 
                 839 
               
               
                 FP5- S. aureus -3 
                 ACCTGTTTTAGTCGGTTTANANNNNAGAAGATCTAACCNNAAAA---------------- 
                 818 
               
               
                 FP5- S. aureus -1 
                 ACCTGNTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCAAANACANN------------- 
                 822 
               
               
                 FP5- S. enterica -2 
                 NCCTGNTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCNAAAACAACACTGCAGTGACTG 
                 828 
               
               
                 FP5- S. enterica -3 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCNAAAACNACACTGCAGTGACTG 
                 835 
               
               
                 FP5- S. enterica -1 
                 ACCTGTTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGTGACNN 
                 830 
               
               
                 FP5- S. enterica -4 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGTGACTG 
                 837 
               
               
                 FP5- S. enterica -5 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCNAAAACAACACTGCAGTGACTG 
                 827 
               
               
                 FP5- S. cerevisiae -3 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGANCTAACCAAAAACAACACTGCAGTGACTG 
                 827 
               
               
                 FP5- S. cerevisiae -5 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGANNANNTAACCAAAAACAACACTGCAGTGACTG 
                 828 
               
               
                 FP5- S. cerevisiae -2 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. cerevisiae -4 
                 ACCTGTTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGNGACTG 
                 832 
               
               
                 FP5- S. cerevisiae -1 
                 NNNNGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGNGACTG 
                 832 
               
               
                   
               
               
                 FP5-neg-control-4 
                 ATTGNAGTANTTATTTTTNNACT------------------------------------- 
                 852 
               
               
                 FP5-neg-control-5 
                 ATTGTAGTANTTATTTTTTTACTTAATCTTAANNNNNNG--------------------- 
                 870 
               
               
                 FP5-neg-control-3 
                 ATTGNAGTATTTNNNNNTNN---------------------------------------- 
                 851 
               
               
                 FP5-neg-control-2 
                 ATTGNANNATTTATTTNNNNNCNNNNTCNTNNNNNNNGNGTAAACATCNACGGCGCACTT 
                 892 
               
               
                 FP5-neg-control-1 
                 ATTGTAGTATTTATTTTTTTACNNNNNCTTAANNNNNNNGNANACNTCAACGGCGCACTT 
                 892 
               
               
                 FP5- S. aureus -4 
                 ATTGNNG----------------------------------------------------- 
                 839 
               
               
                 FP5- S. aureus -5 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. aureus -2 
                 ANNGNAGTATTTATTTTTTTACTTAA---------------------------------- 
                 865 
               
               
                 FP5- S. aureus -3 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. aureus -1 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. enterica -2 
                 ATTGTAGNANNNNNNN-------------------------------------------- 
                 844 
               
               
                 FP5- S. enterica -3 
                 ATTGNAGTATNNNNNN-------------------------------------------- 
                 851 
               
               
                 FP5- S. enterica -1 
                 NNNNNAGTATNNNNNNTTTTACTTANNNNNAATTNTGGTGTAAACATCANCGGCGCACTT 
                 890 
               
               
                 FP5- S. enterica -4 
                 ATTGTAGTANNNNNNNTTTTACTTAATCTTAATTTTGG---------------------- 
                 875 
               
               
                 FP5- S. enterica -5 
                 ATTGNNGNANN------------------------------------------------- 
                 838 
               
               
                 FP5- S. cerevisiae -3 
                 ATTGNAGNANTTATTTTTTTACTTAATCTTAANTTNNG---------------------- 
                 865 
               
               
                 FP5- S. cerevisiae -5 
                 ATNGNAGTATTTATTTTTTTACTTAATCTTAATTTNGNNGNAAACATCANCGGNNNGNTT 
                 888 
               
               
                 FP5- S. cerevisiae -2 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. cerevisiae -4 
                 ATTGNAGTATTTATTTTTTTACTTAATCTTAATTTTGGGGN------------------- 
                 873 
               
               
                 FP5- S. cerevisiae -1 
                 ATTGTAGTATTTATTTTNNNNNNNNATCTT------------------------------ 
                 862 
               
               
                   
               
             
          
         
       
     
         [0055]    In order to test the ability of the invention to provide a means of identification by comparison to a database, the first three sequence embedded fingerprints (Numbers 1-3) generated for each microorganism were used to produce a consensus fingerprint sequence for that organism (Tables 4-6). These consensus sequences were then used to create a BLAST database (NCBI BLAST web server). The fifth sequence embedded fingerprint (number 5) for each organism was used to query the database. The resultant blast scores (Tables 7-9) show that the comparison of BLAST program identifies each microorganisms sequence embedded fingerprint as belonging to the correct species (highest total score). 
         [0000]    
       
         
               
             
               
               
               
             
           
               
                 TABLE 4A 
               
               
                   
               
               
                 CLUSTAL 2.0.11 muultiple sequence alignment 
               
               
                 First three  Staphylococcus aureus  MU3 sequence embedded fingerprints by primer mix  
               
               
                 FB1D1 were aligned and used to generate a consensus sequence 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 46 
                 -------GTTGCTCT-CNGCTGACNATGCTGCTGCTGCTTNNNGNNNCTGTCTCCACTTC 
                   
               
               
                 consensus 
                   
                   
               
               
                 SEQ ID NO: 22 
                 CNGTTATGTTGCTCT-CNGCTGACNATGCTGCTGCTGCTTCNNGNNNCTGTCTCCACTTC 
                 59 
               
               
                 FB1D1  S. aureus  3 
                   
                   
               
               
                 SEQ ID NO: 21 
                 ----TNNGTTGNTCTACNGNTGACNATGCTGCTGCTGCTTNNNNNNNCTGTCTCCACTTC 
                 56 
               
               
                 FB1D1  S. aureus  2 
                   
                   
               
               
                 SEQ ID NO: 23 
                 -------GTTGNTCN-NNGCTGACNATGCTGCTGCTGCTTNNNGNNNCTGTCTCCACTTC 
                 52 
               
               
                 FB1D1  S. aureus  1 
                   
                   
               
               
                   
                        **** **   ** ******************** ** **************** 
                   
               
               
                   
               
               
                 consensus 
                 CTTGAACAATGNGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTANGNCNNA 
                   
               
               
                 FB1D1  S. aureus  3 
                 CTTGAACAATGNGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTAGGNCNNA 
                 119 
               
               
                 FB1D1  S. aureus  2 
                 CTTGAACAATGNGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTANGNNNNA 
                 116 
               
               
                 FB1D1  S. aureus  1 
                 CTTGAACANTGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTANGNCNNA 
                 112 
               
               
                   
                 ******** ** ***************************************** ** *** 
                   
               
               
                   
               
               
                 consensus 
                 CATCAGAACCACCACAGNCNNTNTCNCCNCCTTCCTCTTATAGATTCGGAATCTCATGAT 
                   
               
               
                 FB1D1  S. aureus  3 
                 GATCAGAACCACCACAGNCNNTATCNCCNCCTTCCTCTTATAGATTCGGAATCTCATGAT 
                 179 
               
               
                 FB1D1  S. aureus  2 
                 GATCAGAACCACCACAGNCNNNNTNACCNCCTTCCTCTTATAGATTCGGAATCTCATGAT 
                 176 
               
               
                 FB1D1  S. aureus  1 
                 GATCAGAACCACCACAGNCNNNNTCNCCNCCTTCCTCTTATAGATTCGGAATCTCATGAT 
                 172 
               
               
                   
                 *********************  *  ********************************** 
                   
               
               
                   
               
               
                 consensus 
                 AGGGNNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGANGAGCANTTGCA 
                   
               
               
                 FB1D1  S. aureus  3 
                 AGGGNNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGANGAGCAATTGCA 
                 239 
               
               
                 FB1D1  S. aureus  2 
                 AGGGNNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCNAGCTGANGAGCANTTGCA 
                 236 
               
               
                 FB1D1  S. aureus  1 
                 AGGGGNTCNNCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGCANTTGCA 
                 232 
               
               
                   
                 **** ************************************ ****** ***** ***** 
                   
               
               
                   
               
               
                 consensus 
                 GGTGNNNNNATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAGGAAGAAGTCGTGCCGGGGC 
                   
               
               
                 FB1D1  S. aureus  3 
                 GGTGNNNNNATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAGGAAGAAGTCGTGCCGGGGC 
                 299 
               
               
                 FB1D1  S. aureus  2 
                 GGNGNNNGNNTGTGCTCGGCTCAAGANGCGGGNCCGGANAGGAAGAAGTCGTGCCGGGGC 
                 296 
               
               
                 FB1D1  S. aureus  1 
                 GGTGNNNNNATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAGGAAGAAGTCGTGCCGGGGC 
                 292 
               
               
                   
                 ** **** * **************** ***** ***** ********************* 
                   
               
               
                   
               
               
                 consensus 
                 TAATTATTGGCAAAACGAGCTCTTGTTGTAAACATNGNNNNNNNNNNNNNNNNNNNNNNN 
                   
               
               
                 FB1D1  S. aureus  3 
                 TAATTATTGGCAAAACGAGCTCTTGTTGNAAACNTNGNNNGGGGGGGGNNNNNNNNNNNN 
                 359 
               
               
                 FB1D1  S. aureus  2 
                 TAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGNNNNNNNNNNNNNNNNNNNNNNN 
                 356 
               
               
                 FB1D1  S. aureus  1 
                 TAATTATTGGCAAAACGAGCTCTTGTTGTAAACATNGNNNNNNNNNNNNNNNNNNNNNNN 
                 352 
               
               
                   
                 **************************** **** * ****        ************ 
                   
               
               
                   
               
               
                 consensus 
                 NNN-ATCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAATA 
                   
               
               
                 FB1D1  S. aureus  3 
                 NNN-ATCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAATA 
                 418 
               
               
                 FB1D1  S. aureus  2 
                 NNN-ATCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAATA 
                 415 
               
               
                 FB1D1  S. aureus  1 
                 NNNGNNCAATATTCCATAAGGCATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAATA 
                 412 
               
               
                   
                 ***   ****************************************************** 
                   
               
               
                   
               
               
                 consensus 
                 CGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                   
               
               
                 FB1D1  S. aureus  3 
                 CGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                 478 
               
               
                 FB1D1  S. aureus  2 
                 CGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                 475 
               
               
                 FB1D1  S. aureus  1 
                 CGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                 472 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 consensus 
                 CACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCATTACCAACTGCTT 
                   
               
               
                 FB1D1  S. aureus  3 
                 CACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCATTACCAACTGCTT 
                 538 
               
               
                 FB1D1  S. aureus  2 
                 CACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCNTTACCAACTGCTT 
                 535 
               
               
                 FB1D1  S. aureus  1 
                 CACAATCAGAACAAATATATGCTTTGTATCTTTTCTTGCCTTCTTCATNNNNNNNTGCTT 
                 532 
               
               
                   
                 ********************************************** *       ***** 
                   
               
               
                   
               
               
                 consensus 
                 CCGCGGCCACATTAAGAGAACTTGNGGTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                   
               
               
                 FB1D1  S. aureus  3 
                 CCGCGGCCACATTAAGAGAACTTGNGGTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                 598 
               
               
                 FB1D1  S. aureus  2 
                 CCGCGGCCACATTAAGAGAACTTGNGNTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                 595 
               
               
                 FB1D1  S. aureus  1 
                 CCGCGGCCACATTAAGAGAACTTGGGGTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                 592 
               
               
                   
                 ************************ * ********************************* 
                   
               
               
                   
               
               
                 consensus 
                 CTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATAAT 
                   
               
               
                 FB1D1  S. aureus  3 
                 CTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATAAT 
                 658 
               
               
                 FB1D1  S. aureus  2 
                 CTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATAAT 
                 655 
               
               
                 FB1D1  S. aureus  1 
                 CTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATAAT 
                 652 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 consensus 
                 TGGTAGTGAAAAGGNNNNTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAATG 
                   
               
               
                 FB1D1  S. aureus  3 
                 TGGTAGTGAAAAGGNNNNTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAATG 
                 718 
               
               
                 FB1D1  S. aureus  2 
                 TGGTAGTGAAAAGGNGCGTTGCTATGGTCACCGTGAAGNGAGTACAGCAGCACAAGAATG 
                 715 
               
               
                 FB1D1  S. aureus  1 
                 TGGTAGTGAAAAGGNNNNTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAATG 
                 712 
               
               
                   
                 ***************   ******************** ********************* 
                   
               
               
                   
               
               
                 consensus 
                 TGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCGGNTTAAAGGT 
                   
               
               
                 FB1D1  S. aureus  3 
                 TGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCGGNTTAAAGGT 
                 778 
               
               
                 FB1D1  S. aureus  2 
                 TGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCGGTTTAAAGGT 
                 775 
               
               
                 FB1D1  S. aureus  1 
                 TGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTAACCTGTTTTAGTCGGTTTAAAGGT 
                 772 
               
               
                   
               
               
                 consensus 
                 AAGAAGATCTAACCAAAAAC-AACACTGCAGNGACTGATTGNNGNN-TTNNNNNTTTTTT 
                   
               
               
                 FB1D1  S. aureus  3 
                 AAGAAGATCTAACNNAAANNCAACACTGCANNGACTGNNNNNNNNNATTNNNNNNTTTTT 
                 838 
               
               
                 FB1D1  S. aureus  2 
                 AAGAAGATCTAACCAAAAAC-AACACNGCAGTGACTGATTGNNGNN-NNNNNNNTTTTTT 
                 833 
               
               
                 FB1D1  S. aureus  1 
                 NAGAAGATCTAACCAAAAAC-AACACTGCAGNGACTGATTGTAGTA---TTTATTTTTNN 
                 828 
               
               
                   
                  ************  ***   ***** ***  *****                  *** 
                   
               
               
                   
               
               
                 consensus 
                 ACTTAATCTTAATTTTGGTGTAAACATCAACGG-CGCAC----- 
                   
               
               
                 FB1D1  S. aureus  3 
                 ACTTAATCTTAATTTTGGTGTAAACATCAACNGGCGCACTTN-- 
                 880 
               
               
                 FB1D1  S. aureus  2 
                 ANNTNATCTTAATTTTGGTGTAAACATCNACGG-CGCACTTCAA 
                 876 
               
               
                 FB1D1  S. aureus  1 
                 NNNNNNNCTNNATTTTGGTGTAAACATCAACGG-CGCACNN--- 
                 868 
               
               
                   
                        **  ***************** ** * ***** 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
             
           
               
                 TABLE 4B 
               
               
                   
               
               
                 CLUSTAL 2.0.11 multiple sequence alignment 
               
               
                 First three  Staphylococcus aureus  MU3 sequence embedded fingerprints by primer 
               
               
                 FP5 were aligned and used to generate a consensus sequence 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 47 
                 -----NNNCTGGTTNTGANTACTGTTAANGTTGCTACTACTGCTGACAATGCTGCTGCTG 
                 55 
               
               
                 Consensus 
                   
                   
               
               
                 SEQ ID NO: 33 
                 NNNGCNGCCNGGTTNTGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCTG 
                 60 
               
               
                 FP5- S. aureus -2 
                   
                   
               
               
                 SEQ ID NO: 35 
                 ----NNNNCTGGTTNTGANTACTGTTAANGTTGCTACTACTGCTGACAATGCTGCTGCTG 
                 56 
               
               
                 FP5- S. aureus -1 
                   
                   
               
               
                 SEQ ID ND: 34 
                 -----NNNCTGGTTNTGANTACTGNNNNNGTTGCTACTACTGCTGACAATGCTGCTGCTG 
                 55 
               
               
                 FP5- S. aureus -3 
                   
                   
               
               
                   
                      *  * ******** *****     ******************************* 
                   
               
               
                   
               
               
                 Consensus 
                 CTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCG 
                 115 
               
               
                 FP5- S. aureus -2 
                 CTTCTCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCG 
                 120 
               
               
                 FP5- S. aureus -1 
                 CTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCG 
                 116 
               
               
                 FP5- S. aureus -3 
                 CTTCTCNTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCG 
                 115 
               
               
                   
                 ****** * *************************************************** 
                   
               
               
                   
               
               
                 Consensus 
                 CTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTC 
                 175 
               
               
                 FP5- S. aureus -2 
                 CTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTC 
                 180 
               
               
                 FP5- S. aureus -1 
                 CTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTC 
                 176 
               
               
                 FP5- S. aureus -3 
                 CTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTC 
                 175 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 TTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGC 
                 235 
               
               
                 FP5- S. aureus -2 
                 TTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGC 
                 240 
               
               
                 FP5- S. aureus -1 
                 TTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGC 
                 236 
               
               
                 FP5- S. aureus -3 
                 TTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGC 
                 235 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 AGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGG 
                 295 
               
               
                 FP5- S. aureus -2 
                 AGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGG 
                 300 
               
               
                 FP5- S. aureus -1 
                 AGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGG 
                 296 
               
               
                 FP5- S. aureus -3 
                 AGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGG 
                 295 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 AGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTG 
                 355 
               
               
                 FP5- S. aureus -2 
                 AGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTG 
                 360 
               
               
                 FP5- S. aureus -1 
                 AGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACNTTG 
                 356 
               
               
                 FP5- S. aureus -3 
                 AGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTG 
                 355 
               
               
                   
                 ******************************************************** *** 
                   
               
               
                   
               
               
                 Consensus 
                 ATCCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCAG 
                 415 
               
               
                 FP5- S. aureus -2 
                 ATCCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCAG 
                 420 
               
               
                 FP5- S. aureus -1 
                 NTNCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCAG 
                 416 
               
               
                 FP5- S. aureus -3 
                 ATCCAACTGGAATGTCACTAATGGCGAATCAATATTCCATAAGGCATGATGGTTGCTCAG 
                 415 
               
               
                   
                  * ********************************************************* 
                   
               
               
                   
               
               
                 Consensus 
                 AGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTT 
                 475 
               
               
                 FP5- S. aureus -2 
                 AGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTT 
                 480 
               
               
                 FP5- S. aureus -1 
                 AGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTT 
                 476 
               
               
                 FP5- S. aureus -3 
                 AGGCAGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTT 
                 475 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTT 
                 535 
               
               
                 FP5- S. aureus -2 
                 GATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTT 
                 540 
               
               
                 FP5- S. aureus -1 
                 GATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTT 
                 536 
               
               
                 FP5- S. aureus -3 
                 GATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCTT 
                 535 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGA 
                 595 
               
               
                 FP5- S. aureus -2 
                 GCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGA 
                 600 
               
               
                 FP5- S. aureus -1 
                 GCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGA 
                 596 
               
               
                 FP5- S. aureus -3 
                 GCCTTCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGA 
                 595 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 AGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAG 
                 655 
               
               
                 FP5- S. aureus -2 
                 AGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAG 
                 660 
               
               
                 FP5- S. aureus -1 
                 AGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAG 
                 656 
               
               
                 FP5- S. aureus -3 
                 AGATATTTTATTCGTTCTGCTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAG 
                 655 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 AGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAA 
                 715 
               
               
                 FP5- S. aureus -2 
                 AGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAA 
                 720 
               
               
                 FP5- S. aureus -1 
                 AGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAA 
                 716 
               
               
                 FP5- S. aureus -3 
                 AGGCGGTTAATTGCAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAA 
                 715 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNNNNNNNNNNGAATATGGTAA 
                 775 
               
               
                 FP5- S. aureus -2 
                 GCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNNNNNNNNNNGAATATGGTAA 
                 780 
               
               
                 FP5- S. aureus -1 
                 GCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNNNNNNNNNNGAATATGGTAA 
                 776 
               
               
                 FP5- S. aureus -3 
                 GCGAGTACAGCAGCACAAGAATGTGTGCCGTTCTCAGNNNGNANNNNNNGAATATGGTAA 
                 775 
               
               
                   
                 **************************************** * ***************** 
                   
               
               
                   
               
               
                 Consensus 
                 CCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAANN---------------- 
                 819 
               
               
                 FP5- S. aureus -2 
                 CCTGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAANNNNNNTGCAGTGACTGA 
                 840 
               
               
                 FP5- S. aureus -1 
                 CCTGNTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCAAANACANN-------------- 
                 822 
               
               
                 FP5- S. aureus -3 
                 CCTGTTTTAGTCGGTTTANANNNNAGAAGATCTAACCNNAAAA----------------- 
                 818 
               
               
                   
                 **** ********* *** *    *************  * * 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
             
           
               
                 TABLE 5A 
               
               
                   
               
               
                 CLUSTAL 2.0.11 multiple sequence alignment 
               
               
                 First Three  Saccharomyces cerevisiae  S288C sequence embedded fingerprints by primer mix 
               
               
                 FB1D1 were aligned and used to generate a consensus sequence 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 48 
                  CTGNTAATGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCNCCTCNCTGTCTCCAC 
                   
               
               
                 Consensus 
                   
                   
               
               
                 SEQ ID NO: 10 
                 NCNGNNNNNGNTGCTACTACTGCTGACAATGCTGCTGCTGCTTCTCCTCNCTGTCTCCAC 
                 60 
               
               
                 FB1D1  S. cerevisiae  3 
                   
                   
               
               
                 SEQ ID NO: 11 
                 -CTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCNCCTCNCTGTCTCCAC 
                 59 
               
               
                 FB1D1  S. cerevisiae  2 
                   
                   
               
               
                 SEQ ID NO: 9 
                 -CTGNTAATGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTCTCCTCACTGTCTCCAC 
                 59 
               
               
                 FB1D1  S. cerevisiae  1 
                   
                   
               
               
                   
                  * *     * ********************************* **** ********** 
                   
               
               
                   
               
               
                 Consensus 
                 TTCCTTGAACAATGCGCCGNCNTGCTTCTTTTGCCTCCCGCTGCTCCNGAGNGNTAGGCC 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 TTCCTTGAACAATGCGCCGTCNTGCTTCTTTTGCCTCCCGCTGCTCCNNANNGNTAGGCC 
                 120 
               
               
                 FB1D1  S. cervisiae  2 
                 TTCCTTGAACAATGCGCCGNCNTGCTTCTTTTGCCTCCCGCTGCTCCNGAGNGNTAGGCC 
                 119 
               
               
                 FB1D1  S. cervisiae  1 
                 TTCCTTGAACAATGCGCCGNCNTGCTTCTTTTGCCTCCCGCTGCTCCNGAGNGCTAGGCC 
                 119 
               
               
                   
                 ******************* **************************** * ** ****** 
                   
               
               
                   
               
               
                 Consensus 
                 GCAGATCAGAACCACCACAGNCAATATCACCACCNTCNNCTTATAGATTCGGAATCTCAT 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 GCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATCTCAT 
                 180 
               
               
                 FB1D1  S. cervisiae  2 
                 GCAGATCAGAACCACCACAGNCAATATCACCACCNTCNNCTTATANATTCGGAATCTCAT 
                 179 
               
               
                 FB1D1  S. cervisiae  1 
                 GCAGATCAGAACCACCACAGNCAATATCACCACCNNCNNCTTATAGATTCGGAATCTCAT 
                 179 
               
               
                   
                 ******************** *************  *  ****** ************** 
                   
               
               
                   
               
               
                 Consensus 
                 GATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGCAATT 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 GATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGCAATT 
                 240 
               
               
                 FB1D1  S. cervisiae  2 
                 GATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGCAATT 
                 239 
               
               
                 FB1D1  S. cervisiae  1 
                 GATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGCGAGCTGAGGAGCAATT 
                 239 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GCAGGTGATATGATGTGCTCGGCTCANNGGGNNNNNNNNNNNNNNNNNNNNNNTGCCGGG 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 GCAGGTGATATGATGTGCTCGGCTCANGGGGNNNNNNNNNNNNNNNNNNNNNNNGCCGGG 
                 300 
               
               
                 FB1D1  S. cervisiae  2 
                 GCAGGTGATATGATGTGCTCGGCTCANNGGGCNNNNNNNNNNNNNNNNNNNNNTGCCGGG 
                 299 
               
               
                 FB1D1  S. cervisiae  1 
                 GCNGGTGATATGATGTGCTCGGCTCNNNGGGNNNGGNGNNNNNNNNANGNCNN-GCCGGG 
                 298 
               
               
                   
                 ** ********************** * *** **  * ******** * * ** ****** 
                   
               
               
                   
               
               
                 Consensus 
                 GCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGNNGGNNNNNNA 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 GCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGNNGGNNNNNNA 
                 360 
               
               
                 FB1D1  S. cervisiae  2 
                 GCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCAACTGGNNGGNNNNNNA 
                 359 
               
               
                 FB1D1  S. cervisiae  1 
                 GCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCCNNNNGGNNNGTNNNNNN 
                 358 
               
               
                   
                 *******************************************    **** * ***** 
                   
               
               
                   
               
               
                 Consensus 
                 TGGNGNNNGNNNNTGNCNNNNGGCATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAA 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 TGGNGNNNNNNNNTGCCNNNNNGCATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAA 
                 420 
               
               
                 FB1D1  S. cervisiae  2 
                 TGGNGNNNGNNNNTGNNNNNNGGGATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAA 
                 419 
               
               
                 FB1D1  S. cervisiae  1 
                 NGGNGNNNGANNNTGNNNNNNGGNATGATGGTTGCTCAGAGGCAGGAGAAGAGCAACGAA 
                 418 
               
               
                   
                  *******  *****  **** * *  ********************************* 
                   
               
               
                   
               
               
                 Consensus 
                 TACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAA 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 TACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAA 
                 480 
               
               
                 FB1D1  S. cervisiae  2 
                 TACNATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAA 
                 479 
               
               
                 FB1D1  S. cervisiae  1 
                 TACGATCCTATNAAAGATAAAACATAAATAAACNGTCTTGATTATATTCTGGGTATTAAA 
                 478 
               
               
                   
                 *** ******* ********************* ************************** 
                   
               
               
                   
               
               
                 Consensus 
                 NNCNNNGNCAGAACAAATATATGCTTTGNNNNNNNNCNTGNCNNCNNNNNNNNNNNNNNN 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 GNCNCAGNCAGAACAAATATATGCTTTGTNNCTNNNCNTGCCTTCTTNNNNNNNNNNNNN 
                 540 
               
               
                 FB1D1  S. cervisiae  2 
                 NNNNNNGNCAGAACAAATATATGCTTTGNNNNNTNNCNTGNNNNCNNNNGGNNNNNNNNN 
                 539 
               
               
                 FB1D1  S. cervisiae  1 
                 NNCNNNGNNAGAACAAATATATGCTTTNNNNNNNNTCNNGNCNNNNNNNNNNNNNNNNNN 
                 538 
               
               
                   
                  * *  ** ******************  **   * ** *       **  ********* 
                   
               
               
                   
               
               
                 Consensus 
                 NNNNNNGGCCACNNNNNGAGAACTTGTNNNNNNNTAAGAAGATATTTTATTCGNTCTGCT 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 NNNNNNGGCCACNNNNNNAGAACTTGNGGNGNNATAAGAAGATATTTTATTCGNTCTGCT 
                 600 
               
               
                 FB1D1  S. cervisiae  2 
                 NNNNNNGGCCNCNNNNNGAGAACTTGTNNNNNNNTAAGAAGATATTTTATTCGNNCTGCT 
                 599 
               
               
                 FB1D1  S. cervisiae  1 
                 NNNNNNGGCCACATTAAGAGAACTTGTNNNNNNNTAAGAAGATATTTTATTCGNTCTGCT 
                 598 
               
               
                   
                 ********** *      ********   * ** ******************** *****  
                   
               
               
                   
               
               
                 Consensus 
                 GACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATA 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 GACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATA 
                 660 
               
               
                 FB1D1  S. cervisiae  2 
                 GACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATA 
                 659 
               
               
                 FB1D1  S. cervisiae  1 
                 GACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGCGGTTAATTGCAGATATA 
                 658 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 ATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAN 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 ATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAN 
                 720 
               
               
                 FB1D1  S. cervisiae  2 
                 ATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACANGAN 
                 719 
               
               
                 FB1D1  S. cervisiae  1 
                 ATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAA 
                 718 
               
               
                   
                 ******************************************************** ** 
                   
               
               
                   
               
               
                 Consensus 
                 NGTGTGCCGTTCTCAGTTAATATTGNNTGAATATGGTAACCTGNTTTAGTCGGTTTAAAG 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 NGTGTGCCGTTCTCAGTTAATATNGNNNGAATATGGTAACCTGNTTTAGTCGGTTTAAAG 
                 780 
               
               
                 FB1D1  S. cervisiae  2 
                 NGTGTGCCGTTCTCAGTTAATATTGNTTGAATATGGTAACCTGTTTTAGTCGGTTTAAAG 
                 779 
               
               
                 FB1D1  S. cervisiae  1 
                 TGTGTGCCGTTCTCAGTTAATATTGTNTGAATATGGTAACCTGNTTTAGTCGGTTTAAAG 
                 778 
               
               
                   
                  ********************** *   *************** **************** 
                   
               
               
                   
               
               
                 Consensus 
                 GTAAGAAGANCTAACCAAAAACAACACTGCNNNNNNGNNNGGGGGNNNNNNNNNNNNTAC 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 GTAAGAAGANCTAACCAAAAACAACACTGCNNNNNNNNNNGGGGGNNNNNNNNNNNTTAC 
                 840 
               
               
                 FB1D1  S. cervisiae  2 
                 GTAAGAAGANCTAACCNAAAACAACACTGCNNNNNNGNGGGGGGNNNNNNNNNNNNNTAC 
                 839 
               
               
                 FB1D1  S. cervisiae  1 
                 GTAAGAAGATCTAACCAAAAACAACACTGCNNGNCNGNNNNNNNGGNNNNNNNNNNNTTA 
                 838 
               
               
                   
                 ********* ****** *************** * * *        ********** * 
                   
               
               
                   
               
               
                 Consensus 
                 TNNNNNNNNNTTNNNGGNGNAAACATCNACGNNNNNNNNCAACCAATN 
                   
               
               
                 FB1D1  S. cervisiae  3 
                 TNNNNGNNNNTTNNNGGNGNAAACATCNACGNNNNNNNNCAACCNATNNN 
                 890 
               
               
                 FB1D1  S. cervisiae  2 
                 TTNNNNNNNNNNNNNNNNNN--ACATCNNCGNNNNNNNNCAACCAATAN- 
                 886 
               
               
                 FB1D1  S. cervisiae  1 
                 CTNNNNNNNNATTTTGGNNTAAACATCAACGGNNNNNNNCANCCANNN-- 
                 886 
               
               
                   
                   *** ****       *    *****  ** ********* ** 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
             
           
               
                 TABLE 5B 
               
               
                   
               
               
                 CLUSTAL 2.0.11 multiple sequence alignment 
               
               
                 First Three  Saccharomyces cerevisiae  S288C sequence embedded fingerprints 
               
               
                 by primer FP5 were aligned and used to generate a consensus sequence 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 49 
                 --------CCTGNNNNNGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 52 
               
               
                 Consensus 
                   
                   
               
               
                 SEQ ID NO: 45 
                 --------CCTGNNNNNGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 52 
               
               
                 FP5- S. cerevisiae -1 
                   
                   
               
               
                 SEQ ID NO: 43 
                 NNNTGNNGCCTGNTTNTGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCT 
                 60 
               
               
                 FP5- S. cerevisiae -2 
                   
                   
               
               
                 SEQ ID NO: 41 
                 -------------NNNNNATNNCTGTTNATGTTGCTNCTACTGCTGACAATGCTGCTGCT 
                 47 
               
               
                 FP5- S. cerevisiae -3 
                   
                   
               
               
                   
                                *  **  ***** ******** *********************** 
                   
               
               
                   
               
               
                 Consensus 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 112 
               
               
                 FP5- S. cerevisiae -1 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 112 
               
               
                 FP5- S. cerevisiae -2 
                 GCTTCTCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 120 
               
               
                 FP5- S. cerevisiae -3 
                 GCTTCTCCTCNNTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCC 
                 107 
               
               
                   
                 *********** ************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 172 
               
               
                 FP5- S. cerevisiae -1 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 172 
               
               
                 FP5- S. cerevisiae -2 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 180 
               
               
                 FP5- S. cerevisiae -3 
                 GCTGCTCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCT 
                 167 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 232 
               
               
                 FP5- S. cerevisiae -1 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 232 
               
               
                 FP5- S. cerevisiae -2 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 240 
               
               
                 FP5- S. cerevisiae -3 
                 CTTATAGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTG 
                 227 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 CAGGCGAGCTGAGGAGCANTTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 292 
               
               
                 FP5- S. cerevisiae -1 
                 CAGGCGAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 292 
               
               
                 FP5- S. cerevisiae -2 
                 CAGGCGAGCTGAGGAGCANTTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 300 
               
               
                 FP5- S. cerevisiae -3 
                 CAGGCGAGCTGAGGAGNNNTTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCG 
                 287 
               
               
                   
                 ****************   ***************************************** 
                   
               
               
                   
               
               
                 Consensus 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 352 
               
               
                 FP5- S. cerevisiae -1 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 352 
               
               
                 FP5- S. cerevisiae -2 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 360 
               
               
                 FP5- S. cerevisiae -3 
                 GAGAGGAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATN 
                 347 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 NNNNNNNNNGGNATGTCACTAATGGCGAANNNNNANNNNNTAAGGNNTGATGGTTGCTCA 
                 412 
               
               
                 FP5- S. cerevisiae -1 
                 NNNNNNNNNGGAATGTCACTAATGGCGAANNNNNNNNNNNTAAGGNATGATGGTTGCTCA 
                 412 
               
               
                 FP5- S. cerevisiae -2 
                 NNNNNNNNNNNNANGTCACTAATGGCGAANNNNNANNNNNTAAGGNNTGATGGTTGCTCA 
                 420 
               
               
                 FP5- S. cerevisiae -3 
                 NNNNNNNNTGGNATGTCACTAATGGCGAATNNNNANNNNNTAAGGNNTGATGGTTGCTCA 
                 407 
               
               
                   
                 ********    * *************** **** *********** ************* 
                   
               
               
                   
               
               
                 Consensus 
                 GAGGCAGGAGAAGAGCNNNGNATACNNNNNNATAAAAGATAAAACATAAATAAACAGTCT 
                 472 
               
               
                 FP5- S. cerevisiae -1 
                 GAGGCAGGAGAAGAGCAACGAATACGANGCNNTAAAAGATAAAACATAAATAAACAGTCT 
                 472 
               
               
                 FP5- S. cerevisiae -2 
                 GAGGCAGGAGAAGAGNNNNGNATACNNNNNNATAAAAGATAAAACATAAATAAACAGTCT 
                 480 
               
               
                 FP5- S. cerevisiae -3 
                 GAGGCAGGAGAAGAGCNNNGNATACNNNNNTATAAAAGATAAAACATAAATAAACAGTCT 
                 467 
               
               
                   
                 ***************    * ****  *    **************************** 
                   
               
               
                   
               
               
                 Consensus 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 532 
               
               
                 FP5- S. cerevisiae -1 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 532 
               
               
                 FP5- S. cerevisiae -2 
                 TGATTATATTCTGGGTATTAAAGCCACAATCAGAACAAATATATGCTTTGTATCTTTTCT 
                 540 
               
               
                 FP5- S. cerevisiae -3 
                 TGATTATATTCTGGGTATTAAAGCCNCAATCNNANNAAATATATGCTTTGTATCTTTTCT 
                 527 
               
               
                   
                 ************************* *****  *  ************************ 
                   
               
               
                   
               
               
                 Consensus 
                 TGCCTNNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 592 
               
               
                 FP5- S. cerevisiae -1 
                 TGCCTTNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 592 
               
               
                 FP5- S. cerevisiae -2 
                 TGCCTNNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 600 
               
               
                 FP5- S. cerevisiae -3 
                 TGCCTNNNNNNNNNNNNNNNNNNTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAG 
                 587 
               
               
                   
                 ***** ****************************************************** 
                   
               
               
                   
               
               
                 Consensus 
                 AAGATATTTTATTCGNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 652 
               
               
                 FP5- S. cerevisiae -1 
                 AAGATATTTTATTCGNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 652 
               
               
                 FP5- S. cerevisiae -2 
                 AAGATATTTTATTCGNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 660 
               
               
                 FP5- S. cerevisiae -3 
                 AAGATATTTTATTCNNNNNNNTGNNNNNNTGGATGTCGGGAAATATTCTGCATTTGATAA 
                 647 
               
               
                   
                 ************** ********************************************* 
                   
               
               
                   
               
               
                 Consensus 
                 GAGGCGGTTAANTGNAGATATAATTGGNNGNGAAA------------------------- 
                 687 
               
               
                 FP5- S. cerevisiae -1 
                 GAGGCGGTTNNNTGNAGATATAATTGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGA 
                 712 
               
               
                 FP5- S. cerevisiae -2 
                 GANGCGGNTAANTGNANATATNATTGGNNGNGAAA------------------------- 
                 695 
               
               
                 FP5- S. cerevisiae -3 
                 GAGGCGGTTAANTGCAGATATAATTGNNNNNNNNNNNGGTCGTTGCTATGGTCACCGTGA 
                 707 
               
               
                   
                 ** **** *  *** * **** **** 
                   
               
               
                   
               
               
                 Consensus 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. cerevisiae -1 
                 AGCGAGTACAGCNGNNNNNNNATGTGTGCCGTTCTCAGTTAATATTGTTTGAATANGGNN 
                 772 
               
               
                 FP5- S. cerevisiae -2 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. cerevisiae -3 
                 AGCGAGTACAGCNNNNNNNNNATGTGTGCCGTTCTCAGTTAATATTGTTTGAATATGGTA 
                 767 
               
               
                   
               
               
                 Consensus 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. cerevisiae -1 
                 NNNNGTTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGNGACTG 
                 832 
               
               
                 FP5- S. cerevisiae -2 
                 ------------------------------------------------------------ 
                   
               
               
                 FP5- S. cerevisiae -3 
                 ACCTGTTTTAGTCGGTTTAAAGGTAAGAAGANCTAACCAAAAACAACACTGCAGTGACTG 
                 827 
               
               
                   
               
               
                 Consensus 
                 -------------------------------------- 
                   
               
               
                 FP5- S. cerevisiae -1 
                 ATTGTAGTATTTATTTTNNNNNNNNATCTT-------- 
                 862 
               
               
                 FP5- S. cerevisiae -2 
                 -------------------------------------- 
                   
               
               
                 FP5- S. cerevisiae -3 
                 ATTGNAGNANTTATTTTTTTACTTAATCTTAANTTNNG 
                 865 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
             
           
               
                 TABLE 6A 
               
               
                   
               
               
                 CLUSTAL 2.0.11 multiple sequence alignment 
               
               
                 First Three  Salmonella enterica  MR595 sequence embedded fingerprints by primer 
               
               
                 mix FB1D1 were aligned and used to generate a consensus sequence 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 50 
                 GCTGACAATGCTGCTGCNGCTTCTCCTCNCTGTCTCCACTT 
                   
               
               
                 Consensus 
                   
                   
               
               
                 SEQ ID NO: 18 
                 -------GTTNNTCNNN--GCTGACAATGCTGCTGCNGCTTCTCCTCNCTGTCTCCACTT 
                 51 
               
               
                 FB1D1  S. enterica  3 
                   
                   
               
               
                 SEQ ID NO: 17 
                 CNGNNANGTTNNTCNNN--GCTGACAATGCTGCTGCNGCTTCNCCTCNCTGTCTCCACTT 
                 58 
               
               
                 FB1D1  S. enterica  2 
                   
                   
               
               
                 SEQ ID NO: 19 
                 -------GTTGCTNCTACTGCTGANAATGCTGCTGCTGCTTCTCCTCNCTGTCTCCACTT 
                 53 
               
               
                 FB1D1  S. enterica  1 
                   
                   
               
               
                   
                 *** * ***** *********** ***** ***************** 
                   
               
               
                   
               
               
                 Consensus 
                 CCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTAGGCCGC 
                   
               
               
                 FB1D1  S. enterica  3 
                 CCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTAGGCCGC 
                 111 
               
               
                 FB1D1  S. enterica  2 
                 CCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTAGGCCGC 
                 118 
               
               
                 FB1D1  S. enterica  1 
                 CCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGCTCCAGAAAGCTAGGCCGC 
                 113 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 AGATCANAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATCTCATGA 
                   
               
               
                 FB1D1  S. enterica  3 
                 AGATCANAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATCTCATGA 
                 171 
               
               
                 FB1D1  S. enterica  2 
                 AGATCANAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATCTCATGA 
                 178 
               
               
                 FB1D1  S. enterica  1 
                 AGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTATAGATTCGGAATCTCATGA 
                 173 
               
               
                   
                 ****** ***************************************************** 
                   
               
               
                   
               
               
                 Consensus 
                 TAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNNNNNNNGAGCTGAGGAGCAATTGC 
                   
               
               
                 FB1D1  S. enterica  3 
                 TAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNNNNNNNGAGCTGAGGAGCAATTGC 
                 231 
               
               
                 FB1D1  S. enterica  2 
                 TAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNNNNNGNNAGCTGANGANCAATTGC 
                 238 
               
               
                 FB1D1  S. enterica  1 
                 TAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTNGCAGGCGAGCTGAGGAGCAATTGC 
                 233 
               
               
                   
                 ************************************ ****** ** ******* 
                   
               
               
                   
               
               
                 Consensus 
                 AGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCNGGNNNGNNNGAAGNNNNNNNNNNN 
                   
               
               
                 FB1D1  S. enterica  3 
                 AGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCNGGNNAGGAAGAAGNNNNNNNNNNN 
                 291 
               
               
                 FB1D1  S. enterica  2 
                 AGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGNNNNNNAAGNNNNNNNNNNN 
                 298 
               
               
                 FB1D1  S. enterica  1 
                 AGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCNGNNNNGNNNGAAGTCNNGNCGNGG 
                 293 
               
               
                   
                 ********************************** * *** ** * * 
                   
               
               
                   
               
               
                 Consensus 
                 NTAATTATTGGCAAAACGAGCTCTTGTTGTANNNNNNNNNNNGNNNNNNNNNNNACTNNN 
                   
               
               
                 FB1D1  S. enterica  3 
                 NTAATTATTGGCAAAACGAGCTCTTGTTGTANNNNNNNNNNNGNNNNNNNNNNNACTNNN 
                 351 
               
               
                 FB1D1  S. enterica  2 
                 NTAATTATTGGCAAAACGAGCTCTTGTTNNNNNNNNNNNNNNGNNNNNNNNNNNACTANN 
                 358 
               
               
                 FB1D1  S. enterica  1 
                 CTAATTATTGGCAAAACGAGCTCTTGTTGTANNNNNNNNNNNGNNNNNNNNNNNCTANNG 
                 353 
               
               
                   
                 *************************** *********************** * 
                   
               
               
                   
               
               
                 Consensus 
                 NNNGNNCAATATTCCNTANNGCATGATGGTTGCTCAGAGGCAGNNNNNNAGCAANNNANN 
                   
               
               
                 FB1D1  S. enterica  3 
                 NGNGNNCAATATTCCNTANNGCATGATGGTTGCTCAGAGGCAGNNNNNNAGCAANNNANN 
                 411 
               
               
                 FB1D1  S. enterica  2 
                 GNNGNNCAATATTCCNTANNGCATGATGGTTGCTCAGAGGCAGNNNNNNAGCAACNNANN 
                 418 
               
               
                 FB1D1  S. enterica  1 
                 NNNNATCNATATTCCNTAANGCATGATGGTTGCTCAGAGGCANGNNNN-AGCAACNAANA 
                 412 
               
               
                   
                 * * ********** *********************** **** **** * ** 
                   
               
               
                   
               
               
                 Consensus 
                 CGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                   
               
               
                 FB1D1  S. enterica  3 
                 CGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                 471 
               
               
                 FB1D1  S. enterica  2 
                 CNATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                 478 
               
               
                 FB1D1  S. enterica  1 
                 CGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATTATATTCTGGGTATTAAAGC 
                 472 
               
               
                   
                 * ********************************************************** 
                   
               
               
                   
               
               
                 Consensus 
                 CACAATCAGAACAAATATATGCTTTGTATCTTNNNNNGCCTTCTTCATNNNNNNNNGNTT 
                   
               
               
                 FB1D1  S. enterica  3 
                 CACAATCAGAACAAATATATGCTTTGTATCTTNNNNNGCCTTCTTCATNNNNNNNTGNTT 
                 531 
               
               
                 FB1D1  S. enterica  2 
                 CACAATCAGAACAAATATATGCTTTGTATCTTNNNNNGCCTTCTTCANNNNNNANNGCTN 
                 538 
               
               
                 FB1D1  S. enterica  1 
                 CACAATCAGAACAAATATATGCTTTGTATCTTTNCNNGCCTTCTTCATNNNNNNNNGNTT 
                 532 
               
               
                   
                 ******************************** * ************ ***** * * * 
                   
               
               
                   
               
               
                 Consensus 
                 CCGCGGNCACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                   
               
               
                 FB1D1  S. enterica  3 
                 CCGCGGNCACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                 591 
               
               
                 FB1D1  S. enterica  2 
                 NNNNGGCCACATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                 598 
               
               
                 FB1D1  S. enterica  1 
                 CCGCGNNNNCATTAAGAGAACTTGTGGTAAGATAAGAAGATATTTTATTCGTTCTGCTGA 
                 592 
               
               
                   
                 * *************************************************** 
                   
               
               
                   
               
               
                 Consensus 
                 CTTGCTGGATGTCGGGAAATATTCTGCATTTNNNNNNAGGCGGTTAATTGCAGATATAAT 
                   
               
               
                 FB1D1  S. enterica  3 
                 CTTGCTGGATGTCGGGAAATATTCTGCATTTNNNNNNAGGCGGTTAATTGCAGATATAAT 
                 651 
               
               
                 FB1D1  S. enterica  2 
                 CTTGCTGGATGTCGGGAAATANTCTGCATTTNNNNNNAGGCGGTTAATTGCANATATAAT 
                 658 
               
               
                 FB1D1  S. enterica  1 
                 CTTGCTGGATGTCGGGAAATATTCTGCATTTNNNNNGAGGCGGTTAATTGCAGATATAAT 
                 652 
               
               
                   
                 ********************* ************** *************** ******* 
                   
               
               
                   
               
               
                 Consensus 
                 TGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAATG 
                   
               
               
                 FB1D1  S. enterica  3 
                 TGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAATG 
                 711 
               
               
                 FB1D1  S. enterica  2 
                 TGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAATG 
                 718 
               
               
                 FB1D1  S. enterica  1 
                 TGGTAGTGAAAAGGGTCGTTGCTATGGTCACCGTGAAGCGAGTACAGCAGCACAAGAATG 
                 712 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 TGTGCCGTTCTCNNNNNNTATTGTTTGAATATGGNAACCTGTTTTAGTCGGTTTAAANNN 
                   
               
               
                 FB1D1  S. enterica  3 
                 TGTGCCGTTCTCNNNNNNTATTGTTTGAATATGGNAACCTGTTTTAGTCGGTTTAAANGN 
                 771 
               
               
                 FB1D1  S. enterica  2 
                 NGTGCCGTTCTCNGNNNNTATTGTTTGAATATGGNAACCTGTTTTAGTCGGNTTAANNNN 
                 778 
               
               
                 FB1D1  S. enterica  1 
                 TGTGCCGTTCTCNNNNNNTATTGTTTGAATATGGTAACCTGTTTTAGTCGGTTTAANNNN 
                 772 
               
               
                   
                 ************ ******************** **************** **** * * 
                   
               
               
                   
               
               
                 Consensus 
                 NNNNNNNTCTAACCNAAAACAACACTGCAGNGACNG--ANNGTAGTATTTATTTTNNNNN 
                   
               
               
                 FB1D1  S. enterica  3 
                 NNNNNNT-CTAACCNAAAACAACACTGCAGTGACNG--ANNNNNGTANTTATTTTTTTAC 
                 828 
               
               
                 FB1D1  S. enterica  2 
                 NNNNNNNTCTAACCAAAAACAACACTGNNGNGACTG--ANTGTAGTATTTATTTTNNNNN 
                 836 
               
               
                 FB1D1  S. enterica  1 
                 NNNNNNNTCTAACCAAAAACAACACTGCAGNGGNNNGGNNNGTAGTATTTATTTTNNNNN 
                 832 
               
               
                   
                 ****** ****** ************ * * * *** *******  
                   
               
               
                   
               
               
                 Consensus 
                 NNNNNNCTTAATTTT-GGTGNAAACATCNACGGCGCACTTC 
                   
               
               
                 FB1D1  S. enterica  3 
                 TNNNNNNNNNNNNTTTGGTGNAAACATCAACGGCGCACTTC-------- 
                 869 
               
               
                 FB1D1  S. enterica  2 
                 NNNNN-CTTAATTTT-GGTGNAAACATCNACGGCGCACTTCAACCANNN 
                 883 
               
               
                 FB1D1  S. enterica  1 
                 NNNNNNCTTAATTTT-GGNGNAAACATCNACGGCGCACNTNNN------ 
                 874 
               
               
                   
                 **** * ** ********* ********* * 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
               
             
               
               
               
             
           
               
                 TABLE 6B 
               
               
                   
               
               
                 CLUSTAL 2.0.11 multiple sequence alignment 
                   
               
               
                 First Three  Salmonella enterica  MR595 sequence embedded fingerprints by 
                   
               
               
                 primer FP5 were aligned and used to generate a consensus sequence 
               
               
                   
               
             
             
               
                   
               
             
          
           
               
                 SEQ ID NO: 51 
                 ------GNTTNTGATTACTGTTNNNGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTC 
                 54 
               
               
                 Consensus 
                   
                   
               
               
                 SEQ ID NO: 38 
                 ----CTGNNNNTGATTACTGTNNNNGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTC 
                 56 
               
               
                 FP5- S. enterica -1 
                   
                   
               
               
                 SEQ ID NO: 37 
                 NNNNNNGGTTNTGATTACTGTTAATGTTGCTACTACTGCTGACAATGCTGCTGCTGCTTC 
                 60 
               
               
                 FP5- S. enterica -3 
                   
                   
               
               
                 SEQ ID NO: 36 
                 -------NTTNTGATTACTGTTNNNNNTGCTACTACTGCTGACAATGCTGCTGCTGCTTC 
                 53 
               
               
                 FP5- S. enterica -2 
                   
                   
               
               
                   
                           ***********      ********************************* 
                   
               
               
                   
               
               
                 Consensus 
                 TCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGC 
                 114 
               
               
                 FP5- S. enterica -1 
                 TCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGC 
                 116 
               
               
                 FP5- S. enterica -3 
                 TCCTNNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGC 
                 120 
               
               
                 FP5- S. enterica -2 
                 TCCTCNCTGTCTCCACTTCCTTGAACAATGCGCCGTCATGCTTCTTTTGCCTCCCGCTGC 
                 113 
               
               
                   
                 **** ******************************************************* 
                   
               
               
                   
               
               
                 Consensus 
                 TCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTAT 
                 174 
               
               
                 FP5- S. enterica -1 
                 TCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTAT 
                 176 
               
               
                 FP5- S. enterica -3 
                 TCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTAT 
                 180 
               
               
                 FP5- S. enterica -2 
                 TCCAGAAAGCTAGGCCGCAGATCAGAACCACCACAGTCAATATCACCACCTTCCTCTTAT 
                 173 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 AGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGC 
                 234 
               
               
                 FP5- S. enterica -1 
                 AGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGC 
                 236 
               
               
                 FP5- S. enterica -3 
                 AGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGC 
                 240 
               
               
                 FP5- S. enterica -2 
                 AGATTCGGAATCTCATGATAGGGGCTCAGCCTCTGTGCGAGTGGAGAGAAGTTTGCAGGC 
                 233 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAG 
                 294 
               
               
                 FP5- S. enterica -1 
                 GAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAG 
                 296 
               
               
                 FP5- S. enterica -3 
                 GAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAG 
                 300 
               
               
                 FP5- S. enterica -2 
                 GAGCTGAGGAGCAATTGCAGGTGATATGATGTGCTCGGCTCAAGAAGCGGGCCCGGAGAG 
                 293 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCC 
                 354 
               
               
                 FP5- S. enterica -1 
                 GAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCC 
                 356 
               
               
                 FP5- S. enterica -3 
                 GAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCC 
                 360 
               
               
                 FP5- S. enterica -2 
                 GAAGAAGTCGTGCCGGGGCTAATTATTGGCAAAACGAGCTCTTGTTGTAAACATTGATCC 
                 353 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 AACTGGAATGTCACTAANNNNNNNNNNT-ATTCCATAAGGCATGATGGTTGCTCAGAGGC 
                 413 
               
               
                 FP5- S. enterica -1 
                 AACTGGAATGTCACTAANNNNNNNNANT-ATTCCATAAGGCATGATGGTTGCTCAGAGGC 
                 415 
               
               
                 FP5- S. enterica -3 
                 AACTGGAATGTCACTAANNNNNNNNNNNTATTCCATAAGGCATGATGGTTGCTCAGAGGC 
                 420 
               
               
                 FP5- S. enterica -2 
                 AACTGGAATGTCACTAANNNNNNNNNNATATTCCATAAGGCATGATGGTTGCTCAGAGGC 
                 413 
               
               
                   
                 ************************* *  ******************************* 
                   
               
               
                   
               
               
                 Consensus 
                 AGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATT 
                 473 
               
               
                 FP5- S. enterica -1 
                 NGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATT 
                 475 
               
               
                 FP5- S. enterica -3 
                 AGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATT 
                 480 
               
               
                 FP5- S. enterica -2 
                 AGGAGAAGAGCAACGAATACGATCCTATAAAAGATAAAACATAAATAAACAGTCTTGATT 
                 473 
               
               
                   
                  *********************************************************** 
                   
               
               
                   
               
               
                 Consensus 
                 ATATTCTGGGTATTAAAGCCACANNNNNNNNNNNNNTATGCTTTGTATCTTNNNNNGNCT 
                 533 
               
               
                 FP5- S. enterica -1 
                 ATATTCTGGGTATTAAAGCCACANNNNNNNNNGANNTATGCTTTGTATCTTNNNNNGNCT 
                 535 
               
               
                 FP5- S. enterica -3 
                 ATATTCTGGGTATTAAAGCCACANNNNNNNNNNNNNTATGCTTTGTATCTTNNNNNGNCN 
                 540 
               
               
                 FP5- S. enterica -2 
                 ATATTCTGGGTATTAAAGCCACAANNNNNNNNNNNNTNTGCTTTGTATCTTTNNNNGCCT 
                 533 
               
               
                   
                 *********************** ********  *** ************* ***** * 
                   
               
               
                   
               
               
                 Consensus 
                 TCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGAAGAT 
                 593 
               
               
                 FP5- S. enterica -1 
                 TCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGAAGAT 
                 595 
               
               
                 FP5- S. enterica -3 
                 TCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAAGAAGAT 
                 600 
               
               
                 FP5- S. enterica -2 
                 TCTTCATTACCAACTGCTTCCGCGGCCACATTAAGAGAACTTGTGGTAAGATAANAANAT 
                 593 
               
               
                   
                 ****************************************************** ** ** 
                   
               
               
                   
               
               
                 Consensus 
                 ATTTTATTCNNNNNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGC 
                 653 
               
               
                 FP5- S. enterica -1 
                 ATTTTATTCNNNNNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGC 
                 655 
               
               
                 FP5- S. enterica -3 
                 ATTTTATTCNNNNNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGC 
                 660 
               
               
                 FP5- S. enterica -2 
                 ATTTTATTCNNNNNNNTGACTTGCTGGATGTCGGGAAATATTCTGCATTTGATAAGAGGC 
                 653 
               
               
                   
                 ************************************************************ 
                   
               
               
                   
               
               
                 Consensus 
                 GGTTAATTGCAGATATAATTGGNNNNNNNNNNGNTCGTTGCTATGGTCACCGTGAAGCGA 
                 713 
               
               
                 FP5- S. enterica -1 
                 GGTTAATTGCAGATATAATTGGNNGTNNNNNNGNNCGTTGCTATGGTCACCGTGAAGCGA 
                 715 
               
               
                 FP5- S. enterica -3 
                 GGTTAATTGCAGATATAATTGGNNNNNNNNNNGNTCGTTGCTATGGTCACCGTGAAGCGA 
                 720 
               
               
                 FP5- S. enterica -2 
                 GGTTAATTGCAGATATAATTNNNNNNNNNNNNGGTCGTTGCTATGGTCACCGTGAAGCGA 
                 713 
               
               
                   
                 ********************  **  *******  ************************* 
                   
               
               
                   
               
               
                 Consensus 
                 GTACNGCAGCACAAGAATGTGTGNNNNNNNNNNNNAATATTGNTTGAATATGGTAACCTG 
                 773 
               
               
                 FP5- S. enterica -1 
                 GTACNNCAGCACAAGAATGTGTGNNNNNNNNNNNTAATATNGTTTGAATATGGTAACCTG 
                 775 
               
               
                 FP5- S. enterica -3 
                 GTACAGCAGCACAAGAATGTGTGNNNNNNNNNNNNAATATTGNTTGAATATGGTAACCTG 
                 780 
               
               
                 FP5- S. enterica -2 
                 GTNNNGCNNNNNNAGANTGNGNGGNNGNNNNNNNNNATATTGNTTGAATATGGNNNCCTG 
                 773 
               
               
                   
                 **    *      *** ** * * ** *******  **** * **********   **** 
                   
               
               
                   
               
               
                 Consensus 
                 TTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCNAAAACAACACTGCAGTGACTGATTGN 
                 833 
               
               
                 FP5- S. enterica -1 
                 TTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCAAAAACAACACTGCAGTGACNNNNNNN 
                 835 
               
               
                 FP5- S. enterica -3 
                 TTTTAGTCGGTTTAAAGGTAAGAAGATCTAACCNAAAACNACACTGCAGTGACTGATTGN 
                 840 
               
               
                 FP5- S. enterica -2 
                 NTTTAGTCGGNTTAAAGGTAAGAAGATCTAACCNAAAACAACACTGCAGTGACTGATTGT 
                 833 
               
               
                   
                  ********* ********************** ***** ************* 
                   
               
               
                   
               
               
                 Consensus 
                 AGTATNNNNNN------------------------------------------------- 
                 844 
               
               
                 FP5- S. enterica -1 
                 AGTATNNNNNNTTTTACTTANNNNNAATTNTGGTGTAAACATCANCGGCGCACTTCNACC 
                 895 
               
               
                 FP5- S. enterica -3 
                 AGTATNNNNNN------------------------------------------------- 
                 851 
               
               
                 FP5- S. enterica -2 
                 AGNANNNNNNN------------------------------------------------- 
                 844 
               
               
                   
                 ** * ****** 
                   
               
               
                   
               
               
                 Consensus 
                 ------------------------------ 
                   
               
               
                 FP5- S. enterica -1 
                 NATACTCCAATGNTTTATCCATCGACATGN 
                 925 
               
               
                 FP5- S. enterica -3 
                 ------------------------------ 
                   
               
               
                 FP5- S. enterica -2 
                 ------------------------------ 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
               
               
               
               
             
               
             
               
               
               
               
               
               
               
             
               
             
               
               
               
               
               
               
               
             
           
               
                 TABLE 7 
               
             
             
               
                   
               
               
                   Staphylococcus aureus  MU3 sequence embedded fingerprint #5 was run as query 
               
               
                 sequence. Using BLASTN, low complexity filter on, with values of +2 for a match 
               
               
                 and −3 for a mismatch against the consensus sequence for all three organisms. 
               
               
                 Sequences producing significant alignments: 
               
             
          
           
               
                 Accession 
                 Description 
                 Max score 
                 Total score 
                 Query coverage 
                 E value 
                 Max ident Links 
               
               
                   
               
             
          
           
               
                 by primer mix FB1D1: 
               
             
          
           
               
                 25817 
                   Staphalococcus aureus  MU3 
                 
                   922 
                 
                 989 
                 91% 
                 0.0 
                 92% 
               
               
                 25816 
                   Salmonella enterica  MR595 
                 
                   892 
                 
                 892 
                 97% 
                 0.0 
                 85% 
               
               
                 25815 
                   Saccharomyces cervisiae  S288C 
                 
                   820 
                 
                 820 
                 89% 
                 0.0 
                 84% 
               
             
          
           
               
                 by single primer FP5: 
               
             
          
           
               
                 8382 
                   Staphalococcus aureus  MU3 
                   1355   
                 1355 
                 99% 
                 0.0 
                 98% 
               
               
                 8381 
                   Salmonella enterica  MR595 
                   1128   
                 1128 
                 99% 
                 0.0 
                 89% 
               
               
                 8383 
                   Saccharomyces cervisiae  S288C 
                 
                   940 
                 
                 940 
                 83% 
                 0.0 
                 88% 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
               
               
               
               
             
               
             
               
               
               
               
               
               
               
             
               
             
               
               
               
               
               
               
               
             
           
               
                 TABLE 8 
               
             
             
               
                   
               
               
                   Saccharomyces cerevisiae  S288C MU3 sequence embedded fingerprint #5 was run as 
               
               
                 query sequence. Using BLASTN, low complexity filter on, with values of +2 for a 
               
               
                 match and −3 for a mismatch against the consensus sequences for all three 
               
               
                 organisms 
               
               
                 Sequences producing significant alignments: 
               
             
          
           
               
                 Accession 
                 Description 
                 Max score 
                 Total score 
                 Query coverage 
                 E value 
                 Max ident Links 
               
               
                   
               
             
          
           
               
                 by primer mix FB1D1: 
               
             
          
           
               
                 36125 
                   Saccharomyces cervisiae  S288C 
                 
                   594 
                 
                 963 
                 82% 
                 8e−174 
                 96% 
               
               
                 36126 
                   Salmonella enterica  MR595 
                 
                   439 
                 
                 756 
                 79% 
                 4e−127 
                 93% 
               
               
                 36127 
                   Staphalococcus aureus  MU3 
                 
                   459 
                 
                 736 
                 75% 
                 4e−133 
                 100% 
               
             
          
           
               
                 by single primer FP5: 
               
             
          
           
               
                 39539 
                   Saccharomyces cervisiae  S288C 
                 
                   928 
                 
                 928 
                 73% 
                 0.0 
                 96% 
               
               
                 39538 
                   Staphalococcus aureus  MU3 
                   1088   
                 1088 
                 87% 
                 0.0 
                 87% 
               
               
                 39537 
                   Salmonella enterica  MR595 
                 
                   971 
                 
                 971 
                 90% 
                 0.0 
                 84% 
               
               
                   
               
             
          
         
       
     
         [0000]    
       
         
               
             
               
               
               
               
               
               
               
             
               
             
               
               
               
               
               
               
               
             
               
             
               
               
               
               
               
               
               
             
           
               
                 TABLE 9 
               
             
             
               
                   
               
               
                   Salmonella enterica  MR595 sequence embedded fingerprint #5 was run as query 
               
               
                 sequence. Using BLASTN, low complexity filter on, with values of +2 for a match 
               
               
                 and −3 for a mismatch against the consensus sequence for all three organisms. 
               
               
                 Sequences producing significant alignments: 
               
             
          
           
               
                 Accession 
                 Description 
                 Max score 
                 Total score 
                 Query coverage 
                 E value 
                 Max ident Links 
               
               
                   
               
             
          
           
               
                 by primer mix FB1D1: 
               
             
          
           
               
                 49678 
                   Salmonella enterica  MR595 
                 
                   928 
                 
                 928 
                 97% 
                 0.0 
                 92% 
               
               
                 49679 
                   Staphalococcus aureus  MU3 
                 
                   760 
                 
                 830 
                 91% 
                 0.0 
                 84% 
               
               
                 49677 
                   Saccharomyces cervisiae  S288C 
                 
                   607 
                 
                 607 
                 91% 
                 1e−177 
                 75% 
               
             
          
           
               
                 by single primer FP5: 
               
             
          
           
               
                 20645 
                   Salmonella enterica  MR595 
                   1229   
                 1229 
                 98% 
                 0.0 
                 96% 
               
               
                 20646 
                   Staphalococcus aureus  MU3 
                   1220   
                 1220 
                 95% 
                 0.0 
                 92% 
               
               
                 20647 
                   Saccharomyces cervisiae  S288C 
                 
                   888 
                 
                 888 
                 79% 
                 0.0 
                 88%