Below the table, Consensus writes the least ambiguous expression of the consensus sequence for a confidence level that you request. The sequences follow with one sequence per line, each sequence starting in the first column. There must be no space characters within the sequence. Gaps must be represented with periods. All sequences must be the same length, up to a maximum of 130 bases.
Consensus assumes that the sequences are already in alignment.
ProfileMake creates a position-specific scoring table, called a profile , that quantitatively represents the information from a group of aligned sequences. The ambiguous representation of the sequence may be arbitrary if there are equal numbers of observations of some nucleotides. A's, T's, and C's in each position of the prealigned sequences. G, A, T, and C each have a value of one. The ambiguous nucleotide codes are divided.