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SCAN2aProgram for aligning two aminoacid sequences using a sequential search for most significant similarity regions. Program is provided with viewer. Example of output: L:146 Sequence HEMOGLOBIN BETA NILE CROCODILE vs /home/apache/tmp/glWcq4.scan2 [DD] Sequence: 1( 1), S: 21.664, L: 146 HEMOGLOBIN BETA HUMAN Summ of block lengths: 124, Alignment bounds: On first sequence: start 7, end 146, length 140 On second sequence: start 7, end 146, length 140 Block of alignment: 6 1 P: 7 7 L: 2, G: 100.51, W: 10, S:2.64676 2 P: 14 14 L: 7, G: 83.27, W: 20, S:5.05147 3 P: 24 24 L: 99, G: 78.57, W: 225, S:20.0317 4 P: 128 128 L: 7, G: 94.76, W: 30, S:5.80101 5 P: 137 137 L: 2, G: 92.46, W: 8, S:2.4219 6 P: 140 140 L: 7, G: 82.12, W: 19, S:4.97651 1 asfdphEKqligdLWHKVDVahcGGEALSRMLIVYPWKRRYFENFGDISNAQAIMHNEKV 1 vhltpeEKsavtaLWGKVNVdevGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKV 61 QAHGKKVLASFGEAVCHLDGIRAHFANLSKLHCEKLHVDPENFKLLGDIIIIVLAAHYPK 61 KAHGKKVLGAFSDGLAHLDNLKGTFATLSELHCDKLHVDPENFRLLGNVLVCVLAHHFGK ... Where: 1-st line is the header: [DD] Sequence: 1( 1), S: 21.664, L: 146 HEMOGLOBIN BETA HUMAN
Additional information about alignment: Summ of block lengths: 124, Alignment bounds: On first sequence: start 7, end 146, length 140 On second sequence: start 7, end 146, length 140
List of alignment blocks: Block of alignment: 6 1 P: 7 7 L: 2, G: 100.51, W: 10, S:2.64676 2 P: 14 14 L: 7, G: 83.27, W: 20, S:5.05147
Block of alignment: 6 - Number of blocks in this alignment. 1 P: 7 7 L: 2, G: 100.51, W: 10, S:2.64676
Alignment: 1 asfdphEKqligdLWHKVDVahcGGEALSRMLIVYPWKRRYFENFGDISNAQAIMHNEKV 1 vhltpeEKsavtaLWGKVNVdevGGEALGRLLVVYPWTQRFFESFGDLSTPDAVMGNPKV
1 line - The target sequence itself. Capital letters correspond to blocks of similarity, lower case - not aligned regions.
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