| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 357,890 | 0 | C | A | 56.0% | 14.2 / 72.6 | 50 | L267F (TTG→TTT) | cynR | transcriptional activator of cyn operon; autorepressor |
| Reads supporting (aligned to +/- strand): ref base C (16/6); new base A (0/28); total (16/34) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.52e-08 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.25e-04 | |||||||||||
TGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGA > NC_000913/357741‑358038 | tGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaac > 2:26463/1‑150 (MQ=255) gATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaacaa < 2:435296/151‑1 (MQ=255) aaGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACaaaa < 2:37153/150‑1 (MQ=255) aaGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACaaaa < 1:352/150‑1 (MQ=255) aGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAcc > 1:313012/1‑151 (MQ=255) aGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTcc > 1:713679/1‑150 (MQ=255) gCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCagt > 2:41566/1‑151 (MQ=255) gCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCagt > 1:1099945/1‑151 (MQ=255) cAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCagt > 2:1089009/1‑150 (MQ=255) tCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTgg > 1:1328342/1‑151 (MQ=255) ccacccccaccctggtgtCAGCGTCTCCGGTTATTCTTTCCCGCCAACACCCGCGCTTTTATCCACCGCT‑ATGTGAAAAAATG‑CCTT‑C‑GCGGCGGCTGTTTGCCAGTTTTTTTTCCCCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTg < 2:1104056/135‑1 (MQ=255) ccAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGc > 1:929754/1‑151 (MQ=255) ccGCAGCCCTGTGCCAGCGGCTCCCGTGTTTCTTTCCCGCCAACACCCGCGCTTTTA‑CCCACCCC‑CTTTTCAAAAATGCCCTT‑G‑GGGGCGGCTTTCGGCCAGCTTTTTTCCCGCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCg < 2:688148/148‑1 (MQ=255) cgcagcctttgctCAGCGCCTACCGGGTTTCATTCCCGCCAACACCCGCCCTTTTATCCACCGCA‑TTGTGCAAAAATG‑CCTT‑C‑GGGGCGGCTGTCTGCAAGCTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCg < 2:398269/135‑1 (MQ=255) tgtgTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAagcgga > 2:443109/1‑146 (MQ=255) gtgtCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAG‑aaa > 2:275825/1‑150 (MQ=255) gtgccggcgcCTCCCGTATTTCTTTCCCCCCAACACCCGCTCTTTTACCCACCGCC‑AGGTAAAAAAATG‑CCTC‑G‑GCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAagag < 1:710642/141‑1 (MQ=255) gtCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCggtcacaatgacaaa > 1:326928/1‑137 (MQ=255) tCAGCGGCTCCCGTGTTTCATTCCCCCCAACACCCGCGCTTTTACCCACCGCC‑ATGGGAAAAATGG‑CCTT‑C‑GCGGCGCCTGTCTCCCAGTTTTTTTCCCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAg < 2:31090/150‑1 (MQ=255) gcgcCTACCGTTTTTCATTCCCGACAACACCCGCGATTTTACCAAACCCA‑GTGTGAAAAAATC‑CCTC‑C‑GCGGCGGCTTCCGGCAAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑aaa < 1:616661/144‑1 (MQ=255) gcctcccGTGATTCATTCCCCCCAACACCCGCCCTTTTACCCACCGCA‑ATGTAAAAAAATG‑CCTG‑C‑GGGGCGCCTGTCTGCCAGTTTTTTTCCCGCCAAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCtt < 1:191507/143‑1 (MQ=255) gcctcccGTGATTCATTCCCCCAAACACCCGCGCTTTTCCCCACCGCC‑ATGTGAAAAAAGG‑CTTC‑C‑GGGGCGGTTGTCGGCCGGTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAag < 1:199946/132‑1 (MQ=255) gccTACCGTAATTCATTCCCCCCACCACCCGCGCATTTACCCACCGCA‑AGGTGAAAAAATG‑CCTT‑C‑GGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATa < 2:1269329/142‑1 (MQ=255) ctcccGTGATTCATTCCCCCCAACACCCGCGCTTTTA‑CCAACCCCAATGTGAAAAAAGC‑CCTG‑C‑GGGGGGGCTGTCTGCCAGTTTTTTTCCCGCGCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTa < 1:980603/145‑1 (MQ=255) caaCCGTAATTATTTCCCGCAAACACCCGCAAATTATTCCACCGCC‑GTG‑AAAAAAATC‑CCTT‑CGGCGGCGGGTGTCGGCCAGATATTTTCCCCCCTCACAAAAGCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGc < 2:436222/149‑1 (MQ=255) cATTCCCCCAAACACCCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GGGGCGGTTGTCTGCCAGCTTTTTTTCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCAtgt < 2:537106/149‑1 (MQ=37) ttccccccAACACCGGCGTATTTACCCACCCCC‑ATGTAAAAAATTG‑CCTC‑C‑GCGGCGGCTTTCGCCCAGTTTTTTTCCCCCCCCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTc < 2:714756/137‑1 (MQ=255) ttcccGCCAACACCCGCGCATTTACCCAACGCC‑ATGTGAAAAAATG‑CCTT‑C‑GGGGCGGCTGTCTGCCAGTTATTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCAtgtt < 2:1073043/145‑1 (MQ=255) tccccGCCAAAACCCGCCAATTTACCAACCCCC‑CTGTGCAAAAACG‑CTTG‑C‑GGGGCGGTTGTCCGCCATCTTTTTTCCCGCCGAAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCAtg < 2:234688/143‑1 (MQ=255) cgcacttttACCCACCCCC‑ATGTAAAAAAATG‑CCTC‑G‑GCGGCGGCTGTCTCCCAGCTTTTTTCCCGCCCAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctgct < 2:396197/145‑1 (MQ=255) tttACCCACCGCC‑ATGTG‑AAAAAAG‑CCTTGC‑GGGGCGGCTGTCTGCCGTTTTTTTTCCCGCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGt < 1:753979/148‑1 (MQ=255) aaCGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGGGAAAAAAGATTTAATCCC‑TCATTTTTTGTGGGGATCgctccgggggacaa > 1:1290858/1‑135 (MQ=25) aaccctttgtaaaaaaaTG‑CCTC‑C‑GCGGGGGCTTTCGGCCAGTTTTTTTCCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAAtg < 2:834062/136‑1 (MQ=255) caggtcgaaaaaTG‑CCGG‑C‑GGGGCGGCTGTCTGCCGGCTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAgg < 2:1071704/144‑1 (MQ=255) gtgAAAAAGTC‑CCTC‑G‑GCGGGGGTTGTCTCCCAGTTTTTTTCCCCCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGa < 2:1199636/150‑1 (MQ=255) aaaaaTG‑CCTC‑C‑GCGGCGGCTTTCTGCCATTTTTTTTCCCGCCGCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAg < 2:249186/148‑1 (MQ=255) aaaaaTC‑CCTT‑C‑GCGGCGGCTTTCTCCAAGTTTTTTTCCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGt < 2:571262/149‑1 (MQ=255) aaaaaTC‑CCTC‑C‑GGGGGGGCTGTCTCCCATTTTTTTTCCCGCCACAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTgc < 1:1202249/151‑1 (MQ=255) aaaaaGG‑CCTG‑C‑GGGGCGGTTGTCTCCCAGTTTTTTTCCCGCCGCAAAAAAGCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGaa < 1:1300540/141‑1 (MQ=255) aaaaTG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAG‑GAAAAAATTTAAAGACCCCCTTTTTTGTGGCGATCGCTGGT‑GGGGACCAATTGGAAAGGGAAggg > 2:396467/1‑147 (MQ=255) aatcccgtgc‑gcgCCGCCTGTCTCCCTCCTTTTTTCCCCCCGCAACAAACCCGCCGTTCTCTCCAGTAGTGGCGGTGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTgcgg < 1:474821/142‑1 (MQ=255) aacgcttt‑C‑GGGGGGGCTGTCTGCCGTCTTTTTTCCCGCCAAAACAAATCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTgcggc < 2:807196/145‑1 (MQ=255) ggcggcTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCGAGAG‑AAAAAAATTTTAGACCGGCCTTTTTTGTGGGAATCGCTGCTGGGTAAAAAGTGGGAAAGGGAAGGGGGGGGaaaaacccc > 2:1129257/1‑144 (MQ=255) tGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAG‑AAAAAACTTTTAACCCCTCCTGTTGTGTGGGGATCGCTGCT‑GGGAAAAAAGTGGGAAAGGGAGGGGGGGGGATCAACTCCaaaaac > 2:477572/1‑149 (MQ=255) ccagttttttccccgccgCAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAAcc < 1:1218524/133‑1 (MQ=255) gtttttttgcccgccaAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTa < 1:393044/139‑1 (MQ=255) ttttcCCGCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAg < 2:832256/150‑1 (MQ=255) ttttcCCCCCGAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCa < 2:671595/127‑1 (MQ=255) tCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAG‑GAAAAAATTTTAACCCGGCATGTTTTGTGGGGAACGCCGCT‑GGGTACAAAGTGGAAAGGGGAGAGGGGGGGATCAACCCCCCAAACGCGCTCATTGAGtttg > 2:643437/1‑148 (MQ=255) tCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGAG‑AAAAAAAATTAAACCCCTCATTTTTTGTGGGCATCGCTGCC‑GGGAAAAAAGTGGGAAGGGGAGGGGGGGGGAGCAGCCCCACAACCGCGCCCATTGAGt > 1:851969/1‑147 (MQ=255) ccgccaAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCg < 1:60283/149‑1 (MQ=255) ccgccaAAAAAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCg < 2:226670/149‑1 (MQ=255) ccccctcaaaaaAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTc < 2:242294/142‑1 (MQ=255) aacaaAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGa < 2:1179352/151‑1 (MQ=255) | TGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCC‑ATGTGCAAAAATG‑CCTT‑C‑GCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAG‑AAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCT‑GGTAACAATGTGGAAAGGGAAGTGCGGCGAATCAGCTCCAGAACCGCGCTAATTGAGTTCGCCTCAATGA > NC_000913/357741‑358038 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |