| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 575,915 | T→A | pseudogene (911/1040 nt) | nmpC ← | DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 575,915 | 0 | T | A | 97.4% | 259.2 / ‑1.2 | 76 | pseudogene (911/1040 nt) | nmpC | DLP12 prophage; truncated outer membrane porin (pseudogene);IS, phage, Tn; Phage or Prophage Related; outer membrane porin protein; locus of qsr prophage |
| Reads supporting (aligned to +/- strand): ref base T (2/0); new base A (31/43); total (33/43) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.85e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.52e-01 | |||||||||||
TTTGTAATCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGATCCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCTTTATTAGCA > NC_000913/575818‑576010 | tttGTAATCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACAGATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAAcc < 2:664695/100‑1 (MQ=255) gTAATCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTa < 2:507160/100‑1 (MQ=255) gTAATCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTa > 1:604925/1‑100 (MQ=255) tAATCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTAc > 1:72159/1‑100 (MQ=255) aaTCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTAcc < 2:781846/100‑1 (MQ=255) aTCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCt > 2:280101/1‑100 (MQ=255) cAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCttt < 2:249511/100‑1 (MQ=255) cAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCttt > 1:348858/1‑100 (MQ=255) cGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGa < 1:122720/100‑1 (MQ=255) gTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCa < 2:816407/100‑1 (MQ=255) tAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAg < 2:1394189/100‑1 (MQ=255) tAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAg < 2:196374/100‑1 (MQ=255) tAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAg < 1:971220/100‑1 (MQ=255) aGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAgg < 1:1573452/100‑1 (MQ=255) gACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGt > 1:199801/1‑100 (MQ=255) cATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTaa < 2:468642/100‑1 (MQ=255) atatTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAg > 1:1489/1‑100 (MQ=255) tatTTTTGTTCAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCTAAGAACCTTACCTTTAGATTGCAGGTAAGc < 2:1031195/100‑1 (MQ=255) atTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCa < 1:285140/100‑1 (MQ=255) atTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCa < 1:1098163/100‑1 (MQ=255) atTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCa > 2:311705/1‑100 (MQ=255) ttttttttGTTGTTATAGGTTGCACATACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCaa > 2:23879/1‑100 (MQ=255) ttttGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAac < 2:367296/100‑1 (MQ=255) ttgttgAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAacgg < 1:609243/100‑1 (MQ=255) tgttgAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAacgga < 2:1264511/100‑1 (MQ=255) gttgAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAacggac < 2:541435/100‑1 (MQ=255) ttgAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAacggacg < 2:604922/100‑1 (MQ=255) tgAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAacggacgg > 2:795686/1‑100 (MQ=255) aaGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGATCCTTACCTTTAGATTGCAGGTAAGCAACggacggac > 1:1571694/1‑100 (MQ=255) aGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGgacggacg < 2:30704/100‑1 (MQ=255) aGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGgacggacg > 1:58622/1‑100 (MQ=255) aGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGgacggacg > 2:221591/1‑100 (MQ=255) aGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGgacggacg < 2:1454890/100‑1 (MQ=255) gTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTTATCGCCCCATACCCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGc < 2:756689/100‑1 (MQ=255) gTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGgacggacgn < 2:756645/100‑2 (MQ=255) tAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCa < 1:601279/100‑1 (MQ=255) tAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCa < 1:495104/100‑1 (MQ=255) tAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGAc < 1:795691/100‑1 (MQ=255) gTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCg < 2:1023233/99‑1 (MQ=255) ccTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGATCCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGa > 2:434435/1‑100 (MQ=255) ccTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGa < 2:348857/100‑1 (MQ=255) tACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAAc > 2:1554968/1‑100 (MQ=255) tACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAAc < 2:1010970/100‑1 (MQ=255) tACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAAc > 1:539251/1‑100 (MQ=255) tACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAAc < 1:641201/100‑1 (MQ=255) aTCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGa > 1:1448316/1‑100 (MQ=255) aTCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGa > 1:1448339/1‑100 (MQ=255) aCATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATAtt > 2:1529100/1‑100 (MQ=255) cATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATtg > 2:1061761/1‑100 (MQ=255) cATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATtg < 1:609032/100‑1 (MQ=255) atatTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATtgt < 1:431130/100‑1 (MQ=255) atatTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATtgt < 1:55386/100‑1 (MQ=255) tatTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATtgtg > 1:1199095/1‑100 (MQ=255) atTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGc > 2:1394615/1‑100 (MQ=255) atTTGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGc < 1:23879/100‑1 (MQ=255) tGACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAAc < 2:752690/100‑1 (MQ=255) gACTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTAAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACa > 2:857605/1‑100 (MQ=255) cTAAGTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGc > 2:893580/1‑100 (MQ=255) gTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCg > 1:952930/1‑100 (MQ=255) gTCCTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCg < 1:1020011/100‑1 (MQ=255) cTGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAg < 1:528334/100‑1 (MQ=255) tGATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGCTATTGTGCAACAGCTTCGAGGt > 1:723784/1‑100 (MQ=255) gATCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGtt > 1:1345397/1‑100 (MQ=255) aTCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGttt > 2:1158434/1‑100 (MQ=255) aTCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGttt < 1:969773/100‑1 (MQ=255) tCGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGtttt < 1:1059571/100‑1 (MQ=255) cGCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTg < 2:58622/100‑1 (MQ=255) gCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTgg > 2:1460484/1‑100 (MQ=255) gCCCCATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTgg < 2:1460080/100‑1 (MQ=255) ccATACTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCt < 2:883956/100‑1 (MQ=255) tACTCCAAGAACCTTACCTTTAGATTGCAGGTAGGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTGTTGGGCTtta > 2:1035143/1‑100 (MQ=255) aCTCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCTttat > 2:897395/1‑100 (MQ=255) tCCAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCTttatta < 1:273053/100‑1 (MQ=255) ccAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCTTTATTAg > 1:541966/1‑100 (MQ=255) ccAAGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCTTTATTAg > 1:1496111/1‑100 (MQ=255) aaGAACCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCTTTATTAGCa > 2:1162427/1‑100 (MQ=255) | TTTGTAATCAACGAAAGTAGACATATTTTTGTTGAAGTAATAGGTTGCACCTACATCAACATATTTGACTAAGTCCTGATCGCCCCATACTCCAAGATCCTTACCTTTAGATTGCAGGTAAGCAACGGACGGACGCAGACCGAAATCGAACTGATATTGTGCAACAGCTTCGAAGTTTTGGGCTTTATTAGCA > NC_000913/575818‑576010 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |