| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NZ_CP009273 | 3,199,811 | 0 | C | A | 42.6% | 86.9 / 29.5 | 54 | intergenic (‑196/‑11) | ttdR/ttdA | DNA‑binding transcriptional activator TtdR/L(+)‑tartrate dehydratase subunit alpha |
| Reads supporting (aligned to +/- strand): ref base C (5/26); new base A (23/0); total (28/26) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 9.29e-11 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
ACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTC > NZ_CP009273/3199728‑3199898 | aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGt < 2:2378702/90‑1 (MQ=255)aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGt < 2:1297350/90‑1 (MQ=255)aCATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGt < 1:1839987/90‑1 (MQ=255)aCATATTCACGGTAGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGt < 1:1139425/90‑1 (MQ=255) tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTTCAAACAAAAAAAAAAAATTGAGGTgg > 2:238879/1‑89 (MQ=255) tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGGATTTTTTCAAAAAAAAAAAAAAAAAGGAGGTgg > 1:1223312/1‑89 (MQ=255) tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGAATTTTTTCTAAAAAATAAAAAAAAAGGAGGTgg > 1:2097246/1‑89 (MQ=255) tatTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGAATTTTTTCAAAAAAAAACAAAAAATGGAGGTgg > 1:1201157/1‑89 (MQ=255) ttCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGGATTTTTTCAAAAAAAAAAAAAAAATGGAGGTGGCa > 1:2120140/1‑90 (MQ=255) tCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTTCCat < 1:1132137/90‑1 (MQ=255) aCGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatga < 1:1722643/90‑1 (MQ=255) ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCatgatg < 2:1587216/90‑1 (MQ=255) ggTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGGATTTTTTCCGACAAAAAAAAAAAATGGAGGTGGCctgatg > 2:1279522/1‑90 (MQ=255) gaggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGGAATTTTTCCA‑ACAAAAAAAAAAAAAGGAGGTGGCattatgg > 1:1568958/3‑89 (MQ=255) gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGCGGGGGAATTTTTTCA‑AAAAAAAAAAAAAAAGGAGGTGTCAtggtga > 1:1203571/1‑90 (MQ=255) gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTTCCGAAAAAAAAAAAAAATGGAGGTGGCctgatgg > 2:719262/1‑89 (MQ=255) gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGGATTTTTTCAAAAAAAAAAAAAAAATTGAGGTGCCAtgaaga > 1:1679030/1‑90 (MQ=255) gTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGAAATTTTTTAAACAAAAAAAAAAAAAAGGGTTGGCatgatgg > 1:2244117/1‑89 (MQ=255) ggCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAAATGGGGGAGCCATGATGGGc > 2:394876/1‑90 (MQ=255) gCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTTCAGACAAAAAAAAAAAAATGAGTTGCCATGATGAGCg > 2:1860688/1‑90 (MQ=255) gCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGGATTTTTTCAAACAAAAAAAAAAAATGGGGTTGCCCTGATGAggg > 2:1469874/1‑88 (MQ=255) aaaTATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGt < 1:1523772/90‑1 (MQ=255) atatAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGAAATTTTTCAAACAAAAAAAAAAAATGGGGGTGGCATGATGAGGgaaagaaa > 1:1921744/1‑90 (MQ=255) ataAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGtaata < 2:351193/90‑1 (MQ=255) ataAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGtaata < 2:1203571/90‑1 (MQ=255) ataAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGAATTTTTTCCGACAAAAAAAAAAAATGGGGGTGGCCTGATGAGCGAAAAgaata > 2:1383907/1‑90 (MQ=255) ataAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGGGAAATTTTTCAAAAAAAAAAAAAAAATGGGGGTGGCATTATGAGGGAAAataata > 1:2370538/1‑90 (MQ=255) aaaaCCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAg < 2:651017/90‑1 (MQ=255) cacaTTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACa < 1:1469874/90‑1 (MQ=255) acaTTTTTAGTGGTAGTTTGTGGC‑GGGGAATTTTTTCAGACAAAAAAAAAAAATGGAGGTGCCATGATGGGCGGAAGGAAAAAAAAACAg > 2:1362715/1‑90 (MQ=255) acaTTTTTAGTGGGAGTTTGTGGC‑GGGGAATTTTTCCAGACAAAAACAAAAAATGGGGGTGGCCTTTTGAACGGAAGGAAAAAGCaaaaa > 2:337649/1‑87 (MQ=255) aTTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGc < 1:1600007/90‑1 (MQ=255) aTTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGc < 2:2393503/90‑1 (MQ=255) tttttAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCa < 2:637846/90‑1 (MQ=255) tttttAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCa < 1:1301172/90‑1 (MQ=255) tAGTGGTAGTTTGTGGC‑GGTGGAATTTTTCAGACAAAAAAAAAAAAAGGAGGTGCCCTGATGAGGGGAAGGAATAAACAAAAAGCAATGa > 1:2215902/1‑90 (MQ=255) tAGTGGTAGTTTGTGGC‑GGGGAATTTTTTCAGACAAAAACAAAAAACGGAGTTGCCCTGGTGAGGGAAAAGAAAAAGAAACAGGCAGGGa > 2:1511049/1‑90 (MQ=255) aGTGGTAGTTTGTGGC‑GGTGGATTTTTTCCGACAAAAAAAAAAAATGGAGGTGGCCTGATGGGGGAAAGAAATAAACAAAAAGCAGGGaa > 1:69340/1‑90 (MQ=255) gTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGGAGTGAAt < 1:657408/90‑1 (MQ=255) tGGTAGTTTGTGGC‑GGTGAATTTTTTCCGACAAAAAAAAAAAATGGAGGTGGCATGATGAGGGAAAAGAAAAAAAAAAAAGCAGTGAATa > 1:2320323/1‑90 (MQ=255) gtgcc‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACag > 1:1264331/5‑90 (MQ=255) gtgGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACag < 2:1330063/90‑1 (MQ=255) c‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAt < 1:476073/90‑1 (MQ=255) ggTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGAtt < 1:394876/90‑1 (MQ=255) gTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTg > 2:292482/1‑90 (MQ=255) tttttCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCt < 2:2320323/90‑1 (MQ=255) ttttCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTa < 1:1576429/90‑1 (MQ=255) ttttCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTa < 1:1383907/90‑1 (MQ=255) aCAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTAcc < 2:69340/90‑1 (MQ=255) taaaaaaaCTGGAGTTGCCATGATGAGCGAAAGTAAAAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCAt < 2:2097246/87‑1 (MQ=255) tACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCAt < 2:1201157/90‑1 (MQ=255) aaaaCTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGAtt > 2:2172777/1‑90 (MQ=255) aaCTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTc > 1:1197421/1‑90 (MQ=255) aaCTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTc > 2:1848860/1‑90 (MQ=255) | ACATATTCACGGTGGCAAAAAATATAAAACCACATTTTTAGTGGTAGTTTGTGGC‑GGTGAATTTTTCCAGACAAATACAAAAACTGGAGTTGCCATGATGAGCGAAAGTAATAAGCAACAGGCAGTGAATAAGTTGACAGAGATTGTCGCTAACTTTACCGCCATGATTTC > NZ_CP009273/3199728‑3199898 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 7 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |