Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 5,903,165 | A→C | 24.0% | intergenic (‑129/‑139) | PP_5175 ← / → PP_5176 | HlyD family secretion protein/hypothetical protein |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 5,903,165 | 0 | A | C | 24.0% | 79.9 / 22.6 | 53 | intergenic (‑129/‑139) | PP_5175/PP_5176 | HlyD family secretion protein/hypothetical protein |
Reads supporting (aligned to +/- strand): ref base A (15/25); new base C (9/4); total (24/29) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 5.96e-02 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.71e-01 |
AGCGGACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAATGCCA > NC_002947/5903017‑5903309 | aGCGGACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGAGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGa < 1:29748/149‑1 (MQ=255) gACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGCGccc > 4:232183/1‑149 (MQ=255) gACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGccc < 2:29073/149‑1 (MQ=255) aTCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGaa < 1:172616/149‑1 (MQ=255) aaCGCCATGCTGGTTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGAaga < 2:334571/148‑1 (MQ=255) aaCGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGAaga < 5:261898/148‑1 (MQ=255) aaCGCCATGCGGGCTCCTTGCTTGTGCACATATTCTTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGCGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAaga < 2:286996/148‑1 (MQ=255) tCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGa < 6:126615/131‑1 (MQ=255) tCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGa > 5:126615/1‑131 (MQ=255) tCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCATAGCCGGCGAGCCCCCCAAGAGGCCACCACAccc > 4:91570/1‑147 (MQ=255) cttggtggTGCAAAAATGATTTGTGGGAGTCGACTGGCAGCGCAGGGCAGGGTTCGATAAACATCACTGAGGGGGGCCAGGCGGGCATTTTTGGTGCCTGCGGGGGCCGCTCCGCGGGCGAGCCCGCGAAGAGGCCGCCACAGCCAt < 8:20783/147‑1 (MQ=255) cttgcttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGGTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCAt < 5:253266/147‑1 (MQ=255) cttgcttgTGCAAAATTGATTTGTGGGATGCGCCTGGGAGCGTAGTTCAGGGTTCGATAAACATCCCTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCGCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCAt < 3:91570/147‑1 (MQ=255) gcttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAagag > 6:245054/1‑130 (MQ=255) gcttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAagag < 5:245054/130‑1 (MQ=255) ttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCAAATAGCGGGCGAGCCCGCGAAAGGGCCGACACACCACTGTAtaaa > 4:186917/1‑146 (MQ=255) caAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGc < 3:232183/149‑1 (MQ=255) aaaTGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGc > 1:101182/1‑148 (MQ=255) ttttGTGTGAGGCGACTGTGAGCGTTGTTCTGGGTCCAAAAATCATCCCTGCGGGGGGCCTTGCGGTCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCatat < 8:243246/147‑1 (MQ=255) tGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCa < 2:41201/141‑1 (MQ=255) tGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCa > 1:41201/1‑141 (MQ=255) tGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCACATACCGGGCGAGCCCGCGAAGAGGCCTCCACCGCCAAGTATAAGTATATGCCATAACCAGAAACCa > 4:279532/1‑148 (MQ=255) gACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGAag < 4:238557/100‑1 (MQ=255) gACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTCGCCCGCGAag > 3:238557/1‑100 (MQ=255) gACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCACTATCTGCCATAACCAGAAACCATCAg > 7:79814/1‑149 (MQ=255) aGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGGGAGCCCGCGAAGAGGCCTCCCCAGCCATGTTTCAGTATATGCCCTATCCAGAAAACATc > 4:242522/1‑140 (MQ=255) aGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATc < 3:242522/140‑1 (MQ=255) gTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCAAATAGCGGGCGCGCCCGCCCAGACGCCGCCACAGCCCAGTTTAACTATATGCCAAAAACAAAAACCAACAAGCAAAGGcc > 8:10717/1‑148 (MQ=255) ttCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCCGGCGCGCCCGCGGAGAGGCCTCCCCCGCCAAGTATCAGTATCTGCCATATACAGAAACCCTCAGGCAACGGCCATccc > 8:196103/1‑149 (MQ=255) cAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATATTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCGCCACAGCCATGTATCACTATCTGCCATAACCAGAACCCAACCGGCAACCGCCAAcccc > 6:262466/1‑148 (MQ=255) ggTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGCGCCCGCGAAGAGGCCACCCCAACCCTGTATCAGTATCTGCCATATCCAGAAACCAACAGCCATACGCCCACCCCggt > 8:154806/1‑146 (MQ=255) aCATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTAc < 7:10717/149‑1 (MQ=255) cACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCG‑TGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCttt > 8:47582/1‑148 (MQ=255) aCTGCCGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCttt < 2:281222/148‑1 (MQ=255) aCTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCttt < 3:279532/148‑1 (MQ=255) gggCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAg < 7:208100/149‑1 (MQ=255) cATGGTGGCATTTTTGGGGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTc < 7:154806/149‑1 (MQ=255) aTGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCCAACCGCTACCTTTCACAGGGAGGCTc < 1:178572/149‑1 (MQ=255) cTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTcaca < 3:186917/148‑1 (MQ=255) ggCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTc < 2:101182/149‑1 (MQ=255) gCATTTTTGGTGCCGGCGGGGGCCTCTTCGCGGGGGAGCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTc < 5:27766/148‑1 (MQ=255) ttGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGaa < 7:196103/148‑1 (MQ=255) ggtggCGTCTTCGCGGGCGAGCCCTCGAAGATGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGcc < 8:79814/146‑1 (MQ=255) ggCCTCTTCGCGGGCGAGCCCTCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACGATCGGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTGACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGtt < 5:262466/149‑1 (MQ=255) gCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGt > 4:336649/1‑147 (MQ=255) gCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTa < 7:25301/149‑1 (MQ=255) ctctTCGCGGGCTCGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGc > 7:140716/1‑149 (MQ=255) tctTCGCGGGCTCGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGcc > 7:100108/1‑149 (MQ=255) tctTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGcc > 7:92991/1‑149 (MQ=255) tctTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGcc > 5:107083/1‑149 (MQ=255) tctTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGcc > 1:161738/1‑149 (MQ=255) ttCGCGGGCTCGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTTACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGa > 3:276737/1‑149 (MQ=255) ttCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATTCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGa > 7:152942/1‑149 (MQ=255) gCGATCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACATGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAATGCCa < 8:299068/148‑1 (MQ=255) | AGCGGACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGAGCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTT‑CCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAATGCCA > NC_002947/5903017‑5903309 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |