Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_000913 | 4,101,514 | 0 | G | T | 23.1% | 147.2 / 14.5 | 52 | intergenic (+84/‑176) | sodA/kdgT | superoxide dismutase (Mn)/2‑dehydro‑3‑deoxy‑D‑gluconate:H(+) symporter |
Reads supporting (aligned to +/- strand): ref base G (4/36); new base T (12/0); total (16/36) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 8.82e-09 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Rejected as consensus: Frequency below/above cutoff threshold. |
TGGAACGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCATTG > NC_000913/4101377‑4101643 | tGGAACGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTtgtg > 2:495880/1‑140 (MQ=255) tggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTTTGATCAAtt > 2:1317922/1‑140 (MQ=255) tggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAAtt > 1:1193292/1‑140 (MQ=255) tggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGGTCAAtt > 2:718135/1‑140 (MQ=255) tggtgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGGGGGTTTTTTTTTATCAAtt > 2:328493/1‑140 (MQ=255) tgAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTGTGATCAATTTCa > 1:1366934/1‑140 (MQ=255) gAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCaa < 2:813089/140‑1 (MQ=255) ggACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATaaa < 1:328493/140‑1 (MQ=255) ggACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATaaa > 1:767169/1‑140 (MQ=255) aCGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTTTGATCAAATTCAAAATaaaaa > 2:257199/1‑140 (MQ=255) aaGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGGTCAATTTTAAAATAAAAACaa > 2:1023548/1‑140 (MQ=255) aaGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTCAAAATAAAAACaa > 1:1134930/1‑140 (MQ=255) agcagcGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTCAAAATAAAAACaaa > 2:1198423/1‑139 (MQ=255) agcagcGGCACGTTTTGCGGCGAAAAAATAATAATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAATaaaaaaaaa > 1:1463927/1‑139 (MQ=255) agcGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCGTCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGAt < 2:1283962/140‑1 (MQ=255) gcGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTTTGATTAATTTTAAAATAAAAAAAATGATc > 2:955604/1‑140 (MQ=255) cGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGGTCAATTTTAAAAAAAAAAAAAAGAAcc > 2:1074175/1‑140 (MQ=255) cGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTCAAAAAAAAAAAAATGATcc > 1:944434/1‑140 (MQ=255) cGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGGGGGTTTTTTTTGTTCAATTTTAAAAAAAAAAAAATGATcc > 2:1266474/1‑140 (MQ=255) cACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGat < 1:483381/140‑1 (MQ=255) cACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGat < 1:842800/140‑1 (MQ=255) cACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGat < 2:767169/140‑1 (MQ=255) cggcgAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTCAAAATAAAAACAAAGATCCGctaaaaataaa > 1:575758/1‑140 (MQ=255) gAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAg < 1:750852/140‑1 (MQ=255) gAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAg < 1:1074175/140‑1 (MQ=255) gAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAg < 1:1266474/140‑1 (MQ=255) atCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAAt < 2:533470/140‑1 (MQ=255) cATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTg < 1:1165608/140‑1 (MQ=255) ttGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGAtg < 1:1168974/140‑1 (MQ=255) ttGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGAtg < 1:317300/140‑1 (MQ=255) ccgccTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTgg < 1:1568464/140‑1 (MQ=255) gctgcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTTAATTGATGTGGTTTTGa < 2:1242590/140‑1 (MQ=255) ctgcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGAt < 1:718135/140‑1 (MQ=255) gcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCa < 1:495880/140‑1 (MQ=255) gcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCa < 1:144005/140‑1 (MQ=255) gcAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCa < 2:1183263/140‑1 (MQ=255) aGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTa < 1:955604/140‑1 (MQ=255) gCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTAtt < 2:1366934/140‑1 (MQ=255) gCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAATAAAAAAAATAATCCGATAAAAAAAAAAAAACGGTTTAAATTATGTGGGTTTTATCACTtttttt > 1:763549/1‑140 (MQ=255) cGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTCAAAATAAAAAAAATGATCCGATAAAAAAAAAAAAGCGTTTCAATTGATGTGGTTTTGATCACTttttttt > 1:997884/1‑139 (MQ=255) gCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATTAATTTCAAAATAAAAAAAATGATCCGATAAAAATAAAAAAGCGGTTTAATTGATGTGGTTTTGATCACTTTTTTTGATTAaat > 1:230904/1‑140 (MQ=255) ccGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAaatg < 2:182646/140‑1 (MQ=255) cGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAaatga < 2:463945/140‑1 (MQ=255) cGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAaatga < 2:770965/140‑1 (MQ=255) tatCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGt < 1:315667/140‑1 (MQ=255) tCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCt < 2:645980/140‑1 (MQ=255) tAAAAAATGAACCATCGCCAACGGCGGTGGGTTTTTTTTGATCAATTTTAAAATAAAAAAAAAGATCCGATAAAAATAAAAAAGCGTTTTAATTTATGTGGTTTTTATCACTTTTTTTTATTAAATTAATGTCTAttttt > 2:1514281/1‑139 (MQ=255) aaaaTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGtt < 1:1514281/140‑1 (MQ=255) aaaaTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGtt < 2:1134930/140‑1 (MQ=255) aaaaTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGtt < 2:763549/140‑1 (MQ=255) aTGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTCTATTGATTAAATGAATGTCTATCTTCGTTTcc < 2:594389/140‑1 (MQ=255) ccATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCaa < 2:1193292/140‑1 (MQ=255) cATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAac < 2:997884/140‑1 (MQ=255) aaCGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCAATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATg < 2:1463927/140‑1 (MQ=255) cggTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCa < 1:1317922/140‑1 (MQ=255) gtgggTTTTTTTTGATCAATTTTAAAATAAAAACAAAGATCCGATAAAAATAAAAAAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCAtt > 2:324050/1‑140 (MQ=255) tggtTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCATTg < 2:944434/140‑1 (MQ=255) tggtTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCATTg < 1:18604/140‑1 (MQ=255) | TGGAACGTGGTGAACTGGGACGAAGCAGCGGCACGTTTTGCGGCGAAAAAATAATCATTTGCCGCCTGCTGCAATGAGGCGTATAGGCCGCATATCAGCTTAAAAAATGAACCATCGCCAACGGCGGTGGTTTTTTTGTGATCAATTTCAAAATAAAAACAATGATCCGATAAAAATAAAACAGCGTTTCAATTGATGTGGTTTTGATCACTTTTATTGATTAAATGAATGTCTATCTTCGTTTCCATCAACACTGATGCTCCATTG > NC_000913/4101377‑4101643 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |