| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,001,918 | 0 | A | C | 28.9% | 88.5 / 14.8 | 45 | intergenic (‑129/+192) | fliA/fliC | RNA polymerase, sigma 28 (sigma F) factor/flagellar filament structural protein |
| Reads supporting (aligned to +/- strand): ref base A (30/2); new base C (0/13); total (30/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.44e-09 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ATTCACGATAAACAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCA > NC_000913/2001784‑2002055 | aTTCACGATAAACAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCccg > 1:245774/1‑140 (MQ=255)aTTCACGATAAACAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCccg > 2:305030/1‑140 (MQ=255)aTTCACGATAAACAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCccg > 1:326606/1‑140 (MQ=255) cccTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAg > 2:205826/1‑140 (MQ=255) tGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGGGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCAc < 2:35929/140‑1 (MQ=255) tGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGGTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCAc > 2:323068/1‑140 (MQ=255) cGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGt > 2:544458/1‑140 (MQ=255) tatGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTg > 1:1066920/1‑140 (MQ=255) gTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACaaa > 1:875062/1‑140 (MQ=255) gTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACaaa > 1:554686/1‑140 (MQ=255) aTCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTg > 2:361169/1‑140 (MQ=255) aTCGGCATGACTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGGAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTg > 1:628637/1‑140 (MQ=255) cGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTgcg > 1:479818/1‑140 (MQ=255) tATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGtt > 2:56405/1‑140 (MQ=255) ttCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGAt > 2:465356/1‑140 (MQ=255) ttCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGAt > 1:25563/1‑140 (MQ=255) ttCTGCAGGGTTTTAAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGAt < 1:138851/140‑1 (MQ=255) tGCAGGTTTTTTAATC‑GGAAGATTAGTGGGTGAAATGAGGGGTTATTGGGGGG‑TTACAGGTAAATTCCAGGAAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATgcg < 2:628637/140‑1 (MQ=255) tGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATgcg < 2:1020395/140‑1 (MQ=255) ttttttAATC‑GGACGATTAGGGGGTAAAAGGGGGGGTTATTGGGGGG‑TTACAGGTAAATCCCAGGCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTaa < 2:24167/139‑1 (MQ=255) tttttAAACGGGACGATTGGTGGGTAAAATGGGGGGTTATTGGGGGT‑TTACAGTAAAATTCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTaa < 1:205826/140‑1 (MQ=255) ttAATC‑GGACGATTAGGGGGTGAAATGGGGGGTTATTGGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGc < 1:1066272/140‑1 (MQ=255) c‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTAt > 2:879981/1‑140 (MQ=255) ggACGATTAGTGGGTAAAATGAGGGTTTATTGGGGGG‑TTACAGGTAAATCCCAGGCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATc < 2:479818/140‑1 (MQ=39) gACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATcc > 2:1112251/1‑140 (MQ=255) gACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATcc > 1:52604/1‑140 (MQ=255) gACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATcc > 2:774276/1‑140 (MQ=255) gATTAGTGGGTAAAATGAGGGTTTATTGGGGGG‑TTACAGGTAAATCCCAGGCAAAAAAACCCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGc < 2:875062/140‑1 (MQ=38) ttAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCt > 2:901831/1‑140 (MQ=255) tGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAAt > 2:712855/1‑140 (MQ=255) aaaTGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAAtgt > 2:277175/1‑140 (MQ=255) aaaTGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAG‑AAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAAtgtg > 2:341699/1‑140 (MQ=255) atgggggTTTTTTGGGGGTTTACAGGTAAATTCCAGGAAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGc < 1:648169/137‑1 (MQ=37) gAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCaa > 1:3517/1‑140 (MQ=255) ttATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCaa > 2:968099/1‑140 (MQ=255) gggg‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTg > 1:368684/1‑140 (MQ=255) ggg‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTgt > 1:383729/1‑139 (MQ=255) gg‑TTACAGGTAAATTCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCa < 1:361169/140‑1 (MQ=255) g‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCaa > 1:826675/1‑140 (MQ=255) cAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCa < 1:901831/140‑1 (MQ=255) cAGGTAAATCCCAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCa < 1:40853/140‑1 (MQ=255) cAGGTAAATCCCAGGCAAAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCa < 2:25563/140‑1 (MQ=255) tAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAGATTGCAATTCAACtt > 2:875489/1‑140 (MQ=255) ccAGGCAGAAAAAACCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGc < 1:774276/140‑1 (MQ=255) ccAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGc < 2:368684/140‑1 (MQ=255) ggCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTg > 1:1003707/1‑140 (MQ=255) aaaaaaaCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACCGATTGCGCTTTATGTTGCGGTGTGCAGCGCAAACACCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAag > 2:478558/1‑140 (MQ=37) aaaaaaaCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGCTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAag > 2:757801/1‑140 (MQ=255) aaaaCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAagcgc < 2:52604/140‑1 (MQ=255) aaaCCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAagcgca < 1:323068/140‑1 (MQ=255) | ATTCACGATAAACAGCCCTGCGTTATATGAGTTATCGGCATGATTATCCGTTTCTGCAGGGTTTTTAATC‑GGACGATTAGTGGGTGAAATGAGGGGTTATTTGGGGG‑TTACAGGTAAATTCCAGGCAGAAAAAAACCCCGCCGGTGGCGGGGAAGCACGTTGCTGACAAATTGCGCTTTATGTTGCCGGATGCGGCGTAAACGCCTTATCCGGCCTACAAAAATGTGCAAATTCAATAAATTGCAATTCAACTTGTAGGCCTGATAAGCGCA > NC_000913/2001784‑2002055 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |