| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 312,767 | 0 | G | A | 46.0% | 34.2 / inf | 388 | intergenic (‑766/‑814) | ykgM/eaeH | putative ribosomal protein/attaching and effacing protein |
| Reads supporting (aligned to +/- strand): ref base G (104/105); new base A (79/99); total (184/204) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 3.08e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 | |||||||||||
| Rejected as consensus: Frequency below/above cutoff threshold. | |||||||||||
Only 100 of 398 total aligned reads displayed.
GCATATCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATGAGAGAAC > NC_000913/312692‑312842 | cATATCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGa > 1:2960631/1‑76 (MQ=255) atatCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGaa > 2:4632994/1‑76 (MQ=255) tatCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAAt < 2:4445381/76‑1 (MQ=255) tatCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAAt > 1:5141492/1‑76 (MQ=255) tatCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAAt < 2:3505961/76‑1 (MQ=255) atCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAAtt < 2:641954/76‑1 (MQ=255) atCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAAtt < 2:3238627/76‑1 (MQ=255) agcGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAAtt < 2:328340/74‑1 (MQ=255) cGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGa > 2:153033/1‑76 (MQ=255) cGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGa < 1:1637772/76‑1 (MQ=255) cGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGa > 1:4636852/1‑76 (MQ=255) gCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAg > 2:5534731/1‑76 (MQ=255) gCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAg < 1:3416067/76‑1 (MQ=255) gCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAg > 1:1191856/1‑76 (MQ=255) aTCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGtt > 1:3860835/1‑76 (MQ=255) aTCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGtt > 1:3551941/1‑76 (MQ=255) tctcATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAAtt < 1:423009/70‑1 (MQ=255) tctcATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTc < 2:1199893/76‑1 (MQ=255) tctcATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTc < 2:4179990/76‑1 (MQ=255) tctcATCATAATGTCGCATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTc > 2:2506476/1‑76 (MQ=255) tcatcaTAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTa < 1:1925325/76‑1 (MQ=255) tcatcaTAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTa > 1:1409460/1‑76 (MQ=255) atcatAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTAtt > 1:2867256/1‑76 (MQ=255) atcatAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTAtt > 1:2813994/1‑76 (MQ=255) atcatAATGTCGTATCTCCTGGGGTGTTATACAAGACATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTAtt > 1:2742796/1‑76 (MQ=255) tcatAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTa > 1:269887/1‑76 (MQ=255) catAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTaa < 1:863277/76‑1 (MQ=255) atAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTaaa < 2:358914/76‑1 (MQ=255) atAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTaaa > 1:785677/1‑76 (MQ=255) atAATGCCCTATCTACTGGGGGGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATGGAGTTCTATTaca > 2:3642165/1‑74 (MQ=255) tAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAAc > 1:5370072/1‑76 (MQ=255) aaTGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAAcc > 2:5684170/1‑76 (MQ=255) aaTGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAAcc < 2:5518333/76‑1 (MQ=255) aTGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCg < 1:5786498/76‑1 (MQ=255) aTGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCg < 2:601869/76‑1 (MQ=255) aTGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCg < 2:4572911/76‑1 (MQ=255) tGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTTTATTTAAACGt > 1:2009659/1‑76 (MQ=255) tGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGt > 1:3287355/1‑76 (MQ=255) gTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTaaa < 2:3026106/71‑1 (MQ=255) gTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTc > 1:247887/1‑76 (MQ=255) gTCGTAGCTCATGGGGGGTTATACAAGATATCGTTGGTGGGGACGTGGGAGAGGAATTGAGTTCTATTAAACCGTc > 1:414989/1‑76 (MQ=255) tCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCa > 1:4275277/1‑76 (MQ=255) tCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCa > 2:1055647/1‑76 (MQ=255) tCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCa < 2:5147670/76‑1 (MQ=255) gTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAAc > 1:4076339/1‑76 (MQ=255) tATCTCCTGGGGTGTTATACACGATCTCGTTGTTGTTGACCTGGGCTAGGAATTGATTTCTATTAAACCGTCAACt < 2:2840913/76‑1 (MQ=255) tATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACt < 2:541183/76‑1 (MQ=255) tctcCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTAt > 1:3743093/1‑76 (MQ=255) tctcCTGGGGTGTTATACAAGATATCGTTGTTGGAGAAATGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTAt > 2:1844585/1‑76 (MQ=255) tcCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGc < 2:5341285/76‑1 (MQ=255) ccTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGcc > 2:557524/1‑76 (MQ=255) cTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCg < 2:3145793/76‑1 (MQ=255) ggTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGata > 1:438336/1‑76 (MQ=255) ggTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGata > 2:5797111/1‑76 (MQ=255) ggTGTTAGAAAAGTTAGCGTTGGGGGTGACCTGGGAGAGAAATTGAGTCATATGAAACAGGCAACGATGCCGGata > 2:1757071/1‑76 (MQ=255) gtgtTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTGTGCCGGatac < 2:853747/76‑1 (MQ=255) tgtTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGataca > 1:4559431/1‑76 (MQ=255) tgtTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGataca < 2:4330327/76‑1 (MQ=255) tgtTATACAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGataca < 2:2277019/76‑1 (MQ=255) gtTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGatacat < 1:316393/76‑1 (MQ=255) gtTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGatacat > 1:2027003/1‑76 (MQ=255) tataCAAGATCTCTTTGTTGGTGCCCTGCGAGAGAAATTGAGTTCTCTTAAACCGTCAACTATGCCGGatacctac < 1:3898360/76‑1 (MQ=255) tataCAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGatacatac < 1:5053186/76‑1 (MQ=255) ataCAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACt < 1:5414486/76‑1 (MQ=255) aCAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTgg > 1:4844877/1‑76 (MQ=255) cAAGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGa > 1:4691385/1‑76 (MQ=255) ataGATATCGTGGGTAGTGACCTGGGAGAGGAATTGAGTGCTATTGAACAGCATACTATTCCCGATACAGACTGGa > 2:3765402/3‑76 (MQ=255) aGATATCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGAtt > 1:4945489/1‑76 (MQ=255) gATATCGTTGTTGGTGACCTGGGAGAGGACTTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGAttc < 2:2304400/76‑2 (MQ=255) atatCGTTGTTGGTGTCCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTac < 2:208966/76‑1 (MQ=255) atatCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCTTCAACTATGCCGGATACATACTGGATTac > 1:3619767/1‑76 (MQ=255) atatCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTac < 2:748733/76‑1 (MQ=255) tatCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTaca < 1:1571713/76‑1 (MQ=255) tCGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACt < 1:2336618/76‑1 (MQ=255) cGTTGTTGGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTg < 1:4747960/76‑1 (MQ=255) gttgttGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGc < 2:5033864/76‑1 (MQ=255) ttgttgGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCa < 2:786778/76‑1 (MQ=255) tgttgGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAg < 2:1984296/76‑1 (MQ=255) tgttgGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAg < 1:5729414/76‑1 (MQ=255) tgttgGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAg > 2:4918262/1‑76 (MQ=255) agttgGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAg > 2:1627307/2‑76 (MQ=255) gttgGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAgg < 1:5554456/76‑1 (MQ=255) gttgGTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAgg < 2:3960019/76‑1 (MQ=255) ttgGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGc < 2:1256823/76‑1 (MQ=255) ggTTACCTGGGAGAGAAAGTGAGTTCTAGTAAACCGTCAACTATGCCGGATACATACTGGAGTACACTGCAGGCAc < 1:3079652/76‑1 (MQ=255) ggTGACCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCAc < 2:1384939/76‑1 (MQ=255) aCCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCt < 1:600711/76‑1 (MQ=255) aCCTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCt < 1:497314/76‑1 (MQ=255) ccTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCtt < 1:2218802/76‑1 (MQ=255) ccTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCtt < 1:1030479/76‑1 (MQ=255) cTGGGAGCGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTa < 1:2113513/76‑1 (MQ=255) cTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTa < 2:2960631/76‑1 (MQ=255) cTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTa > 1:1296750/1‑76 (MQ=255) cTGGGAGAGAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTa < 2:2653860/76‑1 (MQ=255) gagagaAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATgag > 1:3025413/1‑76 (MQ=255) gagagaAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATgag > 1:659586/1‑76 (MQ=255) agagGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATgaga < 2:290148/76‑1 (MQ=255) agagAAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATgaga < 2:4847004/76‑1 (MQ=255) gagGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATgagag > 2:877930/1‑76 (MQ=255) agGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATgagaga > 1:1448655/1‑76 (MQ=255) | GCATATCGCATCTCATCATAATGTCGTATCTCCTGGGGTGTTATACAAGATATCGTTGTTGGTGACCTGGGAGAGGAATTGAGTTCTATTAAACCGTCAACTATGCCGGATACATACTGGATTACACTGCAGGCACGCCTTATGAGAGAAC > NC_000913/312692‑312842 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |