| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | CP002094 | 1,875,806 | +TT | coding (566/762 nt) | LLNZ_09765 ← | phosphate transporter ATP‑binding protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP002094 | 1,875,804 | 1 | . | T | 80.7% | 179.3 / 25.3 | 57 | coding (568/762 nt) | LLNZ_09765 | phosphate transporter ATP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base . (0/11); new base T (40/6); total (40/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.71e-08 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| * | CP002094 | 1,875,804 | 2 | . | T | 80.7% | 180.2 / 25.3 | 57 | coding (568/762 nt) | LLNZ_09765 | phosphate transporter ATP‑binding protein |
| Reads supporting (aligned to +/- strand): ref base . (0/11); new base T (40/6); total (40/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.71e-08 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
TAACATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTC‑‑TT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGACACGAGCGA > CP002094/1875706‑1875893 || tAACATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc < 1:218080/99‑1 (MQ=255)tAACATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc > 2:1277011/1‑99 (MQ=255) aaCATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑t < 1:181971/99‑1 (MQ=255) aaCATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑t < 1:797597/99‑1 (MQ=255) aCATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑tt > 1:539902/1‑99 (MQ=255) cATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑ttt > 1:627564/1‑98 (MQ=255) cATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑ttt < 2:755828/99‑2 (MQ=255) cATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑ttt > 2:986020/1‑98 (MQ=255) aTAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑tttt < 2:780453/99‑3 (MQ=255) aTAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑tttt < 1:564583/99‑3 (MQ=255) aTAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑tttt < 1:1496502/99‑3 (MQ=255) aTAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTAGAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑tttt > 1:347024/1‑97 (MQ=255) tAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑Tttc‑‑ttttc < 1:965971/99‑4 (MQ=255) ggTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGa > 1:635575/1‑99 (MQ=255) gTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAg > 2:585771/1‑99 (MQ=255) gTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAg < 1:370837/99‑1 (MQ=255) tACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGc > 2:168203/1‑99 (MQ=255) tACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGc < 1:177347/99‑1 (MQ=255) tCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTg > 2:1301329/1‑99 (MQ=255) tCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTg > 2:1561026/1‑99 (MQ=255) aaaTACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAAt > 2:1348595/1‑99 (MQ=255) aaTACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAAtt > 1:1577596/1‑99 (MQ=255) gATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCaa > 1:203922/1‑99 (MQ=255) aTGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAg > 1:57969/1‑99 (MQ=255) aTGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAg > 1:597382/1‑99 (MQ=39) tgtttgttgCATACTGGGCGTCAGGATAGCTTTTGTATATTTTTTTTTAATTTCAAGC‑‑ATG‑‑G‑‑TTTC‑‑TTTGCGACAGGAGCCGCTGAAATTGGGTCAAgg < 2:1481439/96‑1 (MQ=255) tGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAgg > 2:1299192/1‑99 (MQ=255) tttgttgCATTCTTTGCATCAATATAGCTATTTTTTATTTTTTTTTAATTCCAAGC‑‑TGT‑‑G‑‑TTTC‑‑TTTCCGCCGCGAGCCGCTGAAATTGGGTCAAGGGc < 1:1278572/98‑1 (MQ=255) gttgCATACTATGCGTCACGATAGCGTTTGTATAATTTTTTTTAATTTCAAGC‑‑ATG‑‑T‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGa < 2:214515/99‑1 (MQ=255) ttgCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTgct > 1:795890/1‑97 (MQ=39) gCATCCTGTGGGTCAATATAGGGTTTTTATATTTTTTTTTAAGTCCAAGC‑‑TGG‑‑T‑‑TTTT‑‑TTTCCGCCGCGAGCCGCTGAAATTGGGTCAAGGGCTGATGt < 1:1232652/99‑1 (MQ=255) gCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGt > 1:1185191/1‑99 (MQ=39) gCATACGATGCGTCACGATGGTGTTTTTATATTTTTTTTTAAGTTAAAGCTTTTT‑‑T‑‑TTTT‑‑TT‑‑CGACGGGAGCCGCTGAAATTGGGTCAAGGGCTGATGt < 1:639550/99‑1 (MQ=255) aTACTATGCGTCACTATAGCTATTGTATAATTTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTT‑‑TTTGCGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTg < 2:573106/99‑1 (MQ=255) tACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑TGACACGAGCCGCTGCAATTGGGTCAAGGGCTGATGTTgg > 1:153587/1‑99 (MQ=255) tACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTgg > 2:1573779/1‑99 (MQ=255) tACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTgg > 2:1557453/1‑99 (MQ=255) aTGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCa > 2:1010952/1‑99 (MQ=255) tGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCAt > 2:1602241/1‑99 (MQ=39) tGCGTAACTTTATCGATTGTATATTTTTTTTAAATTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑TGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCAt < 2:1607393/99‑1 (MQ=255) gTCACGATAGTGATTTTATATTTTTTTTTAATTTAAACC‑‑GTG‑‑T‑‑TTTT‑‑TTTCCGCCGGGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCa < 1:620963/99‑1 (MQ=255) tCACGATAGCGATTTTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑GTTTTTT‑‑TT‑‑CGACGGGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCAt < 2:604081/99‑1 (MQ=255) tCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAATGGCTGATGTTGGTTCATCCAt > 1:1221889/1‑99 (MQ=255) aTAGCGATTGTATAATCTTTTTTAAGTTCAAGG‑‑ATGTTT‑‑TTTT‑‑TT‑‑CGACGCGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGa < 2:332107/99‑1 (MQ=255) aTAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGa > 2:88252/1‑99 (MQ=39) tAGCGATTGTATAATTTTTTTTAAGTTAAAGC‑‑TTG‑‑T‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGAt < 2:497323/99‑1 (MQ=255) tAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGAt > 1:1006278/1‑99 (MQ=39) gCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑CTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGCCTGATGTTGGCTCATCCATTAAGATaa > 1:206743/1‑99 (MQ=255) cGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAAt > 2:1334900/1‑99 (MQ=38) tataTTTTTTTTTAGGTTAAAGT‑‑TTG‑‑T‑‑TTTT‑‑TTTCCGACAGGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTgg < 1:311831/99‑1 (MQ=21) tataATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTgg > 2:1074806/1‑99 (MQ=38) tataATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTgg > 1:1056541/1‑99 (MQ=38) ataATCTTTTTTAAGTCCAAGC‑‑AGG‑‑G‑‑TTTCTTTT‑‑GGAACCGAGCGGCTGAATTTGGGTAAAGGCCTGATGTTGTTTATTCATTTAGGTTAATTTCTggt > 2:343965/1‑98 (MQ=255) aaTCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGAtt > 1:1249774/1‑99 (MQ=38) aTCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTg > 1:1349529/1‑99 (MQ=38) tCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGa > 1:391339/1‑99 (MQ=38) tCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGa > 2:921135/1‑99 (MQ=38) tttttttAAGTTCAAGC‑‑TTG‑‑G‑‑TTTT‑‑TTTGCGGCGCGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGAc < 1:1271244/98‑1 (MQ=25) cTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGAc > 2:478255/1‑99 (MQ=38) ttttttAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGAcc > 2:1370885/1‑99 (MQ=38) ttttttAAGTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGAcc > 2:233864/1‑99 (MQ=38) tAAGTTAAAGC‑‑GTG‑‑T‑‑TTTCTTTT‑‑CGACGCGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAg < 2:1659327/99‑1 (MQ=37) aaGTTCAAGA‑‑ATG‑‑G‑‑TTTC‑‑TTTCCGACGCGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAgg < 2:96300/99‑1 (MQ=37) gTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGac > 2:124012/1‑99 (MQ=38) gTTCAAGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGac > 1:442479/1‑99 (MQ=38) aaGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGTCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGACACGa > 2:205101/1‑99 (MQ=38) aaGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGACACGa > 2:647000/1‑99 (MQ=38) aGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGACACGAg > 2:246685/1‑99 (MQ=38) aGC‑‑ATG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGACACGAg > 2:95740/1‑99 (MQ=38) aTG‑‑G‑‑TTTCTTTT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGACACGAGCGa > 1:1258248/1‑99 (MQ=38) || TAACATAAAAGCGGTACGATCTGAAATACGTGATGCTTGTTGCATACTATGCGTCACGATAGCGATTGTATAATCTTTTTTAAGTTCAAGC‑‑ATG‑‑G‑‑TTTC‑‑TT‑‑CGACACGAGCCGCTGAAATTGGGTCAAGGGCTGATGTTGGTTCATCCATTAAGATAATTTCTGGATTGACCGCAAGGACACGAGCGA > CP002094/1875706‑1875893 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 6 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |