| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 2,245,923 | C→T | 6.3% | E29K (GAA→AAA) | rpoE ← | putative DNA‑directed RNA polymerase subunit delta |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 2,245,923 | 0 | C | T | 6.3% | 176.9 / 2.3 | 63 | E29K (GAA→AAA) | rpoE | putative DNA‑directed RNA polymerase subunit delta |
| Reads supporting (aligned to +/- strand): ref base C (19/40); new base T (2/2); total (21/42) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.95e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.34e-01 | |||||||||||
CTCCAACATTTAAAAAACGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGAAGGATATAATCTAAATTTATACGTCT > USA300TCH1516_ALE/2245791‑2246053 | ctcCAACATTAAAAAAACGACCATCTGTGTTTAAATCCGTGTAACATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATCATCACATATAAGTTCATTGTTTCg > 2:62532/1‑134 (MQ=255) tcCAACATTTAAAAAACGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTctc > 1:286337/1‑132 (MQ=255) tcCAACATTTAAAAAACGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGc < 1:534226/134‑1 (MQ=255) ccAACATTTAAAAAACGACCATCTGACGTTAAATCCGTGTAAAATGGTACAACACGATTGTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTTGcc < 1:31543/134‑1 (MQ=255) tAAAAAACTACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCAt < 2:552088/134‑1 (MQ=255) tAAAAAACGACCATCTGTGTTTAAATCCGTGTAATATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCAt < 2:63177/134‑1 (MQ=255) tAAAAAACGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCAt < 1:588830/134‑1 (MQ=255) tAAAAAACGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCAt < 2:120856/134‑1 (MQ=255) tAAAAAACGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCAt < 1:495848/134‑1 (MQ=255) aaaaatCGATCTTCTGTGTTTAACTCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCAtt < 1:248695/134‑1 (MQ=255) aaaaaCGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATATTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTc > 2:493479/1‑134 (MQ=255) cGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCaataa > 1:117563/1‑134 (MQ=255) caCCATCTGTGTTTGCATCCGTGTAAAATTTTACACCACGATTTCCAATTTCTTCGTACTCATAATCACCTAACTCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCaataat < 2:346767/133‑1 (MQ=255) aCCAGCTGTGTTTAGGTCCGTGTAAACTTGTACAACACGATTTTCAATGTCTTCGTACTCATAATCACCTCACGTTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATg < 2:204625/134‑1 (MQ=255) ccATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATACTCACCTAACGCTCTAAATTCATCGATGATATAATAAAAGTACAATGTTTCGCCTTTATCATTCAATAATGt > 1:489366/1‑134 (MQ=255) ccATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTATAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGt > 1:507618/1‑134 (MQ=255) ttttgtgTTTAAATCCATGTTAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGtat < 1:242518/131‑1 (MQ=255) tCTGTGTTTAAATCCGTGTACAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGtata < 2:146806/134‑1 (MQ=255) gtgtTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCATTATCATACAATAATGTATAAGc < 2:531117/134‑1 (MQ=255) gtgtTAAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGc < 1:192550/134‑1 (MQ=255) gtgtAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATTATCACCTAACGCTCTACAATTGTTGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATaaa < 2:5970/134‑1 (MQ=255) gtAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATg < 1:478112/134‑1 (MQ=255) aagtGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGAttt < 2:536002/131‑1 (MQ=255) aaTTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGAttt < 1:361932/134‑1 (MQ=255) aaTTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGAttt < 1:464521/134‑1 (MQ=255) aTTGTACAACACGATTTTCAATTTCTTCGTACTCATAATTATCTAACGCTTTGAATTCATCGATGATATCATATAAGTGCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGAtttt < 1:98626/134‑1 (MQ=255) aTTGTACAACACGATTTTCAATTTCTTCGTACTCATAATTATCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGAtttt < 1:471085/134‑1 (MQ=255) aTTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAGATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGAtttt < 2:582730/134‑1 (MQ=255) aTTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGAtttt < 1:466046/134‑1 (MQ=255) tACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTtcat < 2:353881/134‑1 (MQ=255) acaacaCGATTTTCAATTTCTTCGTACTCATAATCACCTAACGTTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTTGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTtcatc < 1:167173/134‑1 (MQ=255) aacaCGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTtcatcat > 2:278711/1‑133 (MQ=255) acacGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAAc < 1:167391/134‑1 (MQ=255) acacGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAAc < 1:313919/134‑1 (MQ=255) ctaTTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCAt < 1:429221/132‑1 (MQ=255) cGATTTTCAATTTCTTCGTACTCATAATCACCTATCGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCAt < 1:359568/134‑1 (MQ=255) cGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCAt < 1:173342/134‑1 (MQ=255) ttttCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTTGCCTTTATCATTCAATAATGTATAAGCCATATCCATACATGATTTTTTATCAACTAtttt > 1:12194/1‑133 (MQ=255) ttttCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTTGCCTTTATCATTCAATAATGTATAAGCCATATCACTAACTCATTCTTCATCTACCAtttg > 1:127697/1‑134 (MQ=255) ttCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCCACCAtttgtt > 2:315708/1‑134 (MQ=255) cAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCAtttgtttt > 2:446026/1‑134 (MQ=255) aaTTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCAtttgttttg < 2:454148/134‑1 (MQ=255) cttcGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATGTATGATTTTTCATCAACCCTTTCTTTTGTATaa > 1:35027/1‑134 (MQ=255) cttcGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTTTTTTGTATaa > 1:579177/1‑134 (MQ=255) cttcGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATaa > 1:294258/1‑134 (MQ=255) cttcGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATAACATATAAGTTCATTATTTCGCCTTTATCATTCAATAATGTTTATGCGGCACCAATCATTGCTTTTTCCACCACGATTTGTGTTGTATaa > 1:136745/1‑134 (MQ=255) cttcGTACTCAAAATCAGTTGGTGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATaa > 2:370564/1‑134 (MQ=255) tCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAAt < 1:525964/134‑1 (MQ=255) aTCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAACTGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCa > 1:516986/1‑134 (MQ=255) aTCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATAGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCa > 1:318777/1‑134 (MQ=255) tCACCTAACGCTCTAAATTCATCGATGATATCATATATGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTCGAATTTTCAt < 1:309950/134‑1 (MQ=255) tCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCAt < 1:523788/134‑1 (MQ=255) aaCGCTCTAAATTCATCGATGATATCATACAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTCTAATCTTGAATTTTCATTGCCCa > 2:197781/1‑134 (MQ=255) tAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTc < 1:551551/134‑1 (MQ=255) tAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTc < 1:131992/134‑1 (MQ=255) ttCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATTTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCttt < 1:148833/134‑1 (MQ=255) cttCGATGATATCATATATGTTCCTTGTTTCGCCTTTATCATTCAATAATGTATTAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCg < 2:316993/132‑1 (MQ=255) atctttgatATCATATAATTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTCTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGa < 2:305104/129‑1 (MQ=255) aTCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGa > 2:12794/1‑134 (MQ=255) aaGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGAAGCATATATTCTaact > 1:270305/1‑132 (MQ=255) ttGTTTCGCTTTTGTCATTCTATATTGTATAGTCCATATCAATAAATGTTTTTTCATCAACCATTTGTTTTGTATAATCTCGATTTTTCATTGCCCATTACTTCCTTTCGAAGGATATAATCTAATTTTATACg < 2:297653/134‑1 (MQ=255) ttGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGAAGGATATAATCTAAATTTATACg < 1:446026/134‑1 (MQ=255) ttGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTCTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGAAGGATATAATCTAAATTTATACg < 2:363599/134‑1 (MQ=255) tttCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACAATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGAAGGATATAATCTAAATTTATACGTCt > 2:262044/1‑134 (MQ=255) | CTCCAACATTTAAAAAACGACCATCTGTGTTTAAATCCGTGTAAAATTGTACAACACGATTTTCAATTTCTTCGTACTCATAATCACCTAACGCTCTAAATTCATCGATGATATCATATAAGTTCATTGTTTCGCCTTTATCATTCAATAATGTATAAGCCATATCAATAAATGATTTTTCATCAACCATTTGTTTTGTATAATCTTGAATTTTCATTGCCCAATACTTCCTTTCGAAGGATATAATCTAAATTTATACGTCT > USA300TCH1516_ALE/2245791‑2246053 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |