Hi GGoldberger, Thank you for bringing this to our attention. We believe you have uncovered a minor bug in BLAT. We will be looking into a fix for this bug.
Thank you! Katrina Learned UCSC Genome Bioinformatics Group [email protected] wrote, On 11/10/10 05:59: > Why is it when I blat this human sequence the base 739C comes up as a > mismatch in the '09 version but not in the earilest ones? > > Thanks, > > GGoldberger > > >> Lfg5hu >> > > AGGCTTTGGA TGACCGACCA CTGGCTCAGG AGCTGGGAGA GCTACTTGAG 50 > GGCCAAGTGA AAGCCTCATT TTGTGATTCA GGCACCAGCC AAATACAGTT 100 > GCATGAGGAA AATTCAGTTG CCTGTGGCTT TGTTTTTTGT TTTGTTTTGT 150 > TTTTGAGTGC TTTGAAAATC TTGCTGCCTC TGCCCCTTCT GATTTGCAAG 200 > ACACTGGAGA GGAAATCAAC TTGGTTATCT GAGCATCCTC TAGTGCCTCT 250 > CAGCTCTGCG TGAAGACTGC TTTCCTCGGA GGAGTCCAAA CTTTATCAAA 300 > AAGAGAAATA TTTCCTTTTC TCTTCACAAT GAAATTGGAC TTGGAGGTCA 350 > GCGAACCAAT AGACTTTGGT TCTGGAGGTC ATCAACATCT GATTCAGGAA 400 > GCAGCAGATA AAAGCATCCA GTCCCAATCT GGTGAGCGCT ACACACCTTC 450 > ATCTTCAGCT GGGCCACAAG AAACTCGGAA GAAGCCACGG CCAAAGGACA 500 > CCGAGCAGTT GAATACCTGT GTGATAGAAA TTTCAGATGA CGTCACCCCA 550 > GGTGATAACA ATGCAACTTT AGGCAATCCT TTCTCAGACG CATCTGTCCG 600 > CAGAGCTTTC ATTATCAAAG TGTTCTTCCT CCTGTCAGTT CAGTTGTTGC 650 > TCACTGTGGT AATTACCAGT GTGTTTATTT TCTGGGAGGC TTTAAAAGTT 700 > TGGGTGCTCA AAAATCCCTG GTTCATCTCT GCAATCTTCT CAGCATTTTT 750 > TGCCATACTT ATTATACTTG ATTGCTGTGG GAATCTCCCC CGTCAGGTGC 800 > CTGCAGATTA CATTCTCCTG GGATTCTTTA CAGCTCTTCA AGGTCTGCAG 850 > CTAGGAGCCG TATCAGTTTT CTACAAGGCC GAGGAAGTGT CATGGGCAAC 900 > AGCTGCAACC ACTCTGGTGA TGCTAGCACT CACTTTGTTT GCTCTACAAA 950 > CAAAATGGGA TTTTACCTGG CTAAATGGAG CACTATTCGT TTTCTGCTTC 1000 > GTGCTTTTAA TCTATGGAAT TACCTTAATC TTCGTGCGAT TATAGTGGCT 1050 > GCATCTATTA TATGCTGGAC TCGGAACTGT GCTCTTCTCA CTCTACTTGG 1100 > TGATCGATGT GCAGCTCATG CTGGGAGGGC ACCGCCATTA TTCCCTGGAC 1150 > CCTGAAGGGT ATGTTTTTGC TATCCTGAAC ATCTACTTGG ACATCATCGA 1200 > CCTTTTCATT TTTATTCTGC GTCTGATTGG ACGGGGACGG TAGTCACGCA 1250 > ACCAAGGCTG GCTCGTGCGG AGAAGAGGAA GGAGGGGTGC TGTGGAGTGT 1300 > TGCCGGGCTC AGGCATGCAG AAGTCACCAC TTCAGAAGCT CTTTTATTTA 1350 > AAAAAAAATT TTAAGAATAC TTTTTTTTTG TCAAATGAAA CCAAGAATTG 1400 > AGTAGATGAT AGCTGTAGCT GTTATATTTT TAGTTCCATT GTCACGTAGC 1450 > AAAACTTTCT GGGGACATTT CTAATTTTTA TAGATTCAAA AGATGAGTAT 1500 > CATAATTACA TACTTACAAA CATTTGTATA ATGCCCATTC CTTTGTTGGA 1550 > GTTTTCTGAA CACTATTTAA AGCTGTAAAC > _______________________________________________ > Genome maillist - [email protected] > https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
