Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_007779 | 357,099 | 0 | A | T | 38.5% | 11.5 / 10.4 | 26 | N272K (AAT→AAA) | cynR | transcriptional regulator CynR |
Reads supporting (aligned to +/- strand): ref base A (12/4); new base T (0/10); total (12/14) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 2.01e-04 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.25e-01 | |||||||||||
Rejected as consensus: Frequency below/above cutoff threshold. |
GCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGACCACCTGTGGATGTAGCCCCGCTTTCTCGCAGTAGTGGTCAATTTGCTCTCTGGTGGCAAATTCC > NC_007779/356865‑357327 | gCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCCGCTa > 1:1253620/1‑235 (MQ=255) gCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTa > 1:517661/1‑235 (MQ=255) gCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTa > 1:370606/1‑235 (MQ=255) gCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACCCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCCACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCCGCTGTCTGCCAGCTa > 1:1425864/1‑235 (MQ=255) gCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACCCCCTATCCCGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCCATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCCACAACCGCGCATTTATCCAACGCCCCGTGCAAAAAT‑G‑CCTTCCCGGCGGCTTTCTGCCAGCTa > 1:1671823/1‑235 (MQ=17) cTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCCTTTATCCCACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCCGCTATTTTTCCCCCGCCACAAAACCCCCCTtctctc > 1:1308439/1‑235 (MQ=255) tAGTTTATGCCGGACGCGGCGTGAACCCCTTATCCCGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCCACCGTGATTCATTTCCGCCAACAACCCCCCATTTATCCAACCCCCCGGTCACAAAT‑G‑CCCTCGCGGCGGCCTTCCGCCCGCCATTTTTTCGCCGCAACAAAACCGCCGTtctcgtcan > 2:1167930/1‑230 (MQ=17) ttATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCCATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCCATTTTTCCGCCGCAAAAAAACCGCCGTTCTCTCCcggagt > 1:181107/1‑235 (MQ=255) gCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCCGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCCGTAGTGGCg > 1:896206/1‑235 (MQ=255) cGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCggg > 1:1341656/1‑235 (MQ=255) cGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCAACAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCCGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCCGTAGTGGCggg > 1:1920390/1‑235 (MQ=255) ggATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCCGTAGTGGCgggg > 1:342629/1‑235 (MQ=255) ggATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGGTCTCTCCagtcttgctctta > 1:1118466/1‑225 (MQ=255) gcggcgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCCACAAAACCGCCGTTCTCTCCAGGAGGGGCgggggggg > 2:478280/1‑231 (MQ=255) tACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAAGAAAAGCATTTAACCCgccctg > 1:1582016/1‑230 (MQ=255) cTGAACGCGTGGGCCTGATAGGCGGACCGCATCACGCAATCCCACCCGCAGCCCTGTGTCGGCGGCTACGTTGATTCTTTCCCGCCACCACCCGCCCTTTTACCCACCGCCAGGCGAAAAAAT‑G‑CCTCGGGGGGGGTTGTCTGCCTGTTTTTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCaa < 2:1308439/235‑1 (MQ=255) naccccggcgcccTGAAACGCTTAGCCCATCAGCCAACCCCACCCGCACCCCTGTGGCAGCGGCTCCCGTTATTCATCCCCGCCACCACCCGCGTATTTACCCACCGCAAGGAGAAAAACT‑C‑CTTCCGGGGCGGTTTTCTGCCATTTTTTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATc < 2:505965/224‑1 (MQ=255) gCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGCGAGAAAAAAATTTAAAAACGCCCTGTTGTGTTGGGATAGCTGCggggg > 1:973496/1‑233 (MQ=18) gCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGCGAAAAAACTTTTAGCCCCTCCCGTTTTGTGGGGATCGCTGCTGGGGACAATGTTgggagggaggagggg > 1:48354/1‑228 (MQ=21) accccAGCCGCACGCCTGTGGCCGCGGCTCCCGTTCTTCATCCCCCACAACACCCGCGCATTTCACCAACGCCATGAACAAAAAT‑C‑CCTCCGCGGCGGCTGTCTGCCATTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGa < 2:1484080/232‑1 (MQ=255) ctttccccccAACACCCGCCATTTTACCCACCGCCTTGTAAAAAATG‑G‑CCTTCGCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAAt < 1:111863/227‑1 (MQ=255) ctttcccGCCAACACCCGCGCTTTTATCC‑ACCCCATTGAAAAAAATGG‑CCTTGGGGGCGGTTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAAt < 1:1268666/230‑1 (MQ=255) ctctccccccAACCCCCGCGCATTTCCCCCACTCCGTGTAAAAAAGG‑G‑CCTGCGGGGCGTCTGTCCGCCATTTATTGCCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAAt < 2:1019583/227‑1 (MQ=255) cATTCCCCCCAACACCCGCGCTTTTCCCCCACCCCATGTACAAAATT‑G‑CTCCCGGGGCGTCTGTCTGCCATCTTTTTTCCCCCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAAt < 1:1929579/235‑1 (MQ=255) cATTCCCCCCAACACCCGCCCTTTTACCCACCGCCATGCGCAAAAAC‑C‑CTTCCGGGGCGGTTTTCTGCAAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAAt < 1:383973/235‑1 (MQ=255) gCCAGCACCCGCGAATTAAGCCACCGCGAGGTGCAAAAAT‑G‑CCTCCGGGGGGGCTGTCTACCGTCTATTTTCCCGCCAAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGaccacc < 1:327478/235‑1 (MQ=255) gCCAACACCCGCGTATTTACCCACCGCCATGTGAAAAAGT‑G‑CCTCCGCGGCGGCTGTCTGCCAGCTATTTTCCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGaccacc < 1:478280/235‑1 (MQ=255) accaccccctctttACCCCACCCCCTGCGCAAAAAG‑CCCCTCCGCGGCGGTTGCCGGCCATTTTTTTCCCCCCCGAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGACCACCtgt < 1:399659/224‑1 (MQ=255) caaaaaaT‑G‑CTGGCGGGGCGGCTGTCGCCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGACCACCTGTGGATGTAGCCCCGCTTTCTCGCAGTAGTg < 1:513147/233‑1 (MQ=255) cctgccggcaaGCTTTTTGCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGACCACCTGTGGATGTAGCCCCGCTTTCTCGCAGTAGTGGTCAATTTGCTCTCtggtgg < 1:1063156/225‑1 (MQ=255) cagcttATTTTCCCGCCGCAACAAAGCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGACCACCTGTGGATGTAGCCCCGCTTTCTCGCAGTAGTGGTCAATTTGCTCTCTGGTGGCAAATTcc < 1:859201/230‑1 (MQ=255) | GCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAAT‑G‑CCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGACCACCTGTGGATGTAGCCCCGCTTTCTCGCAGTAGTGGTCAATTTGCTCTCTGGTGGCAAATTCC > NC_007779/356865‑357327 |
Alignment Legend |
---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |