| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,591 | 0 | T | C | 54.2% | 16.5 / 29.8 | 24 | K271E (AAA→GAA) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base T (11/0); new base C (0/13); total (11/13) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.01e-07 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.68e-06 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTG > NZ_CP009273/353502‑353677 | cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 2:1910786/1‑90 (MQ=255)cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 2:163705/1‑90 (MQ=255)cTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAttttt > 2:600467/1‑90 (MQ=255) tGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgccg > 2:1365264/1‑90 (MQ=255) aTTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGc‑a > 1:363384/1‑90 (MQ=255) gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑ccgc > 2:1248789/1‑90 (MQ=255) gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑ccgc > 2:1270217/1‑90 (MQ=255) cacccGCGCTTTTACCCACCCCCATGTGAAAAAATCCCTCCGGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTtc < 2:964838/87‑1 (MQ=255) cacccGCGCTTTTACCCAACGCCATGTAAAAAAATCCCTTCGGGGGGGCTGTCTGCCATCTTTTTTCCCGCCCC‑AAAAAA‑A‑CCGCCGTtc < 2:820775/87‑1 (MQ=255) acCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGGCGC‑AACAAA‑A‑CCGCCGTtctc > 2:1553982/1‑90 (MQ=255) tATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCagtagct > 2:489412/1‑88 (MQ=255) tATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTg > 1:1459587/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:1717409/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:146648/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:1014234/1‑90 (MQ=255) aaaaaaTCCTTTCGGGGCGGCTGTCTCCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:1000084/89‑1 (MQ=255) aaaaaaTCCTTCCGGGGCGGTTGTCTGCCATTTTTTTTCCCGCCCA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:1859261/89‑1 (MQ=255) aaaaaaTCCTTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCCCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 2:943741/89‑1 (MQ=255) aaaaaTGCCTCCGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:195781/90‑1 (MQ=255) aaaaaTCCTTTCGGGGCGGCTGTCTCCCAGTTTTTTTCCCCCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 2:1244160/90‑1 (MQ=255) gCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAGAAAAAACtttt > 2:1435399/1‑89 (MQ=255) ctccgcgGCGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 2:1493385/87‑1 (MQ=255) cgccgcgGCGGCTGTATGCCATTTTTTTTCCCGCCCA‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 2:366904/87‑1 (MQ=255) cggcggcgGTTGGCTGCCACTTTTTTTCCCCCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:1335532/88‑1 (MQ=255) ccggggcggtTTTCTGCCATTTTTTTCCCCCCCGC‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:1176685/86‑1 (MQ=255) cggcTGTCGGCCAGTTTTTTTCCCGCCGC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAt < 2:153258/90‑1 (MQ=255) gcTGTCTCCCATTTTTTTTCCCCCCGA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 2:168203/90‑1 (MQ=255) ttatttcCCGCCCC‑AAAAAACC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATc < 2:345322/87‑1 (MQ=255) tttttcCCCCCGA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:1264663/89‑1 (MQ=255) tttttcCCCCCCC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:1059057/89‑1 (MQ=255) tttttcCCCCCAC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:541343/89‑1 (MQ=255) tttttCCCCCCCAAAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:363384/90‑1 (MQ=255) tttttCCCCCCA‑AAAAAA‑ACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:997192/90‑1 (MQ=255) ttttCCGCCAC‑AAAAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 2:1717410/90‑1 (MQ=255) tttcCCCCCGA‑AAAAAA‑C‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:1395519/90‑1 (MQ=255) | CTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAA‑A‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTG > NZ_CP009273/353502‑353677 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |