| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 353,601 | 0 | C | A | 59.7% | 0.2 / 60.7 | 57 | L267F (TTG→TTT) | cynR | transcriptional regulator CynR |
| Reads supporting (aligned to +/- strand): ref base C (18/5); new base A (0/34); total (18/39) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.08e-10 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.04e-04 | |||||||||||
| Rejected as consensus: E-value score below prediction cutoff. | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
TTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACA > NZ_CP009273/353515‑353686 | tttCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACaaa > 2:685531/1‑90 (MQ=255)tttCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACaaa > 1:293214/1‑90 (MQ=255)tttCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACaaa > 2:549801/1‑90 (MQ=255) gCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑ccgc > 2:109042/1‑90 (MQ=255) cacccGCTCTTTTACCCAACCCTATGTGAAAAAATGCCTG‑CGCGGCGGCTGTCTGCCAGTTATTTTTCCGCCGC‑AAAAAAA‑‑CCGCCGTtc < 1:685531/87‑1 (MQ=21) cacccGCGCTTTTACCCACCGCCATGTGAAAAAATGCCTT‑CGGGGGGGCTGTCTGCCAGCTTTTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTtc < 1:370907/87‑1 (MQ=25) cacccGCGCTTTTACCCACCGCCATGGGCAAAAATGCTTT‑CGCGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AACAAAA‑‑CCGCCGTtc < 1:513639/87‑1 (MQ=21) cacccGCGCTTTTACCCACCCCCATGTGAAAAAATGCTTT‑CGGGGCGGCTGTCTGCCAGCTTTTTTCCCGCCGC‑AACAAAA‑‑CCGCCGTtc < 1:771138/87‑1 (MQ=21) cacccGCGCTTTTACCCACCCCCATGTGAAAAAATGCTTC‑CGGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AACAAAA‑‑CCGCCGTtc < 1:459149/87‑1 (MQ=255) cacccGCGCTTTTACCCACCCCCATGGGAAAAAAGGCCTT‑GGGGGCGGCTGTCGGCCAGTTTTTTTCCCGCCGA‑AAAAAAA‑‑CCGCCGTtc < 1:146858/87‑1 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTcc > 1:1172197/1‑90 (MQ=255) gcgcATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCAC‑AACAAAA‑‑CCGCCGTTCTCTcc > 2:638510/1‑90 (MQ=255) tATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTg > 1:23331/1‑90 (MQ=255) cccAACGCCATGTGAAAAAATGCCTT‑CGGGGGGGCTGTCTGCCAGTTTTTTTCCCGCCGA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGc < 1:1262920/89‑1 (MQ=25) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTtc > 2:485681/1‑72 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:688834/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:582133/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:413081/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:90537/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 1:1179736/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:341117/1‑90 (MQ=255) aCGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCgggg > 2:437591/1‑90 (MQ=255) aCGCCATGTGAAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTTTTTTTCCGCCGC‑AAAAAAA‑‑CCGCCGTtc < 1:485681/72‑1 (MQ=25) cccttgtgAAAAAATGCTTT‑CGGGGGGGTTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCa < 1:338805/86‑1 (MQ=255) cAAAAATCCCTT‑CGCGGCGGTTGTCTGCCGGTTTTTTTCCCGCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:41196/90‑1 (MQ=255) aaaaaaTGCCTT‑CGGGGGGGCTGTCTGCCAGTTTTTTTCCCCCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:275239/89‑1 (MQ=255) aaaaaaTCCTTT‑CGGGGGGGTTTTCTGCCAGTTTTTTTCCCGCCGA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAAt < 1:179496/89‑1 (MQ=255) aaaaaGCCCTC‑CGGGGCGGCTGTCTCCCAGTTTTTTTCCCCCCGA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:715482/90‑1 (MQ=255) aaaaTTCCTTCCGGGGGGGTTGTCTCCCACTTTTTTTCCCGCCGA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATa < 1:1489091/90‑1 (MQ=255) ctccgcgGCGGCTGTCTGCCAGCTTTTTTCCCCCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 1:579199/87‑1 (MQ=255) ctccgcgGCGGCTGTCTCCCAGTTTTTTTCCCCCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAg < 1:549801/87‑1 (MQ=255) t‑CGGGGGGGCTTTCTCCCATTTTTTTTCCCGCCCA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:823422/90‑1 (MQ=255) t‑CGGGGCGGCTGTCTGCCAGTTTTTTTCCCGCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 1:390479/90‑1 (MQ=255) ccggggcggtTGTCGGCACGTTTTTTTCCCGCCGC‑AAAAAAC‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:1264973/86‑1 (MQ=255) ccgcgGCGGTTGTCGGCCAGTTTTTTTCCCGCCCA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGcc < 2:1117065/89‑1 (MQ=255) gggcggtTGTC‑GCCCGGTTTTTTTCCCCCCA‑AAAAAAAC‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGt < 2:437320/89‑1 (MQ=255) gcggcTGTCTGCCAGTTTTTTTCCCCCCGA‑AAAAAAC‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCa < 2:1205307/90‑1 (MQ=255) gttttCTGCCAGTTTTTTTTCCGCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 1:73371/86‑1 (MQ=255) gcTGTCGCCCAGCTTTTTTCCCCCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCAtgt < 1:521564/90‑1 (MQ=255) tttttttCCCCCCCAAAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATc < 2:154255/88‑1 (MQ=255) ttttttCCCCCCC‑AAAAAAAACCCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATc < 2:751086/89‑1 (MQ=255) tttttcCCGCCGC‑AAAAAAC‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:373049/89‑1 (MQ=255) tttttcCCGCCGC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGGAATCgc < 1:28909/89‑1 (MQ=255) tttttcCCGCCGA‑AAAAAAC‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:1497773/89‑1 (MQ=255) tttttcCCGCCGA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:838263/89‑1 (MQ=255) tttttcCCGCCGA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:365088/89‑1 (MQ=255) tttttcCCGCCAC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 2:1519771/89‑1 (MQ=255) tttttcCCGCCAA‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:961332/89‑1 (MQ=255) tttttcCCGCCAA‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:1435552/89‑1 (MQ=255) tttttCCCCCCCAAAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:811472/90‑1 (MQ=255) tttttCCCCCCCAAAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgc < 1:172289/90‑1 (MQ=255) tttcCCCCCAC‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCgctg < 1:1098091/90‑1 (MQ=255) gccgc‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAGAAAAAAATTTTAACCCCCCCTGTTTTGTGGGGAACGCTGCTgggg > 1:245360/1‑88 (MQ=255) gccgc‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGGAGAGAAAAAAATTTTAACCCCCCCCGTTGTGTGGGGAACGCTGCTgggg > 1:1069872/1‑88 (MQ=255) gccga‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 2:1150262/90‑1 (MQ=255) cccga‑AAAAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTa < 1:496137/89‑1 (MQ=255) gc‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGGAAGGGAAAAAACTTTTAACCCCCCCTGTTGTTTGGGGATAGCTGCTTGtgaaa > 1:319991/1‑86 (MQ=255) | TTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTT‑CGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGC‑AACAAAA‑‑CCGCCGTTCTCTCCAGTAGTGGCGGGGCAAGAGAAATAGCTTTAAGCCCGTCATGTTGTGTGGCAATCGCTGCTGGTAACA > NZ_CP009273/353515‑353686 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 5 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |