This is very similar to the Gmap display with columns defined at the bottom, zoom buttons and the top blue bar for object identification. The peptide sequence can be coloured by LM click on the Peptide section at the bottom, then follow the bu ttons on the new window, remembering to toggle on the radio button. Next to the sequence is a hydrophobicity plot and rightwards are depicted protein homologies. This was written by Eric Sonnhammer. The top part shows the length of and percentage homology of the other proteins or DNA sequences for the target and below this, the portion contained in the sliding box is and shows a list of these proteins and their sequence by coding frame.
Identical residues are dark, similar residues are light blue.
Picking one of the MSPs above will highlight it in cyan thus showing where it crossmatches in other parts of the target sequence. The Grid map is mainly used in genome databases to display hybridisation results. In the C. elegans database, a representation of a 96-well grid of YACs is used to store hybridisation patterns of cDNAs and other YACS for mapping purposes. The Grid can be reached by asking for the Grid Class on the main window. After getting a list of Pathway objects, you can select any pathway and see the display.