Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 5,903,164 | G→T | 11.1% | intergenic (‑128/‑140) | 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 | 5,903,164 | 0 | G | T | 11.1% | 106.1 / 3.4 | 51 | intergenic (‑128/‑140) | PP_5175/PP_5176 | HlyD family secretion protein/hypothetical protein |
Reads supporting (aligned to +/- strand): ref base G (18/27); new base T (2/4); total (20/31) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.54e-01 |
GACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAATGC > NC_002947/5903021‑5903307 | gACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTA‑Gccc > 5:300562/1‑149 (MQ=255) gACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGC‑Gccc > 5:356186/1‑149 (MQ=255) cATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTC‑GCCCGCGa < 5:363709/149‑1 (MQ=255) aTCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGC‑GCCcgcg > 2:320497/1‑147 (MQ=255) aTCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCcgcg > 6:120035/1‑147 (MQ=255) aTCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGaa < 4:314316/149‑1 (MQ=255) tCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGa < 5:321291/139‑1 (MQ=255) tCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGa > 6:321291/1‑139 (MQ=255) tCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCcgcg > 5:71166/1‑146 (MQ=255) tCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCGGGGGG‑Gcccccc > 1:153918/1‑143 (MQ=255) tCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCATAGCGGGCGA‑GCCCGCCaa > 8:301408/1‑148 (MQ=255) cAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTC‑GCCCGCGAaga < 3:71645/149‑1 (MQ=255) aaCGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCTC‑GCCCGCGAagag < 1:320497/149‑1 (MQ=255) aCGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGCGGCCCATGATGGCATTTTTCTTGCCTGAGGGGGCCTCATAGCGGGCGA‑GCCCCAGAAGAgg > 1:315251/1‑149 (MQ=255) cATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGaa < 1:21873/141‑1 (MQ=255) cATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGaa > 2:21873/1‑141 (MQ=255) atGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCcaca < 6:303329/148‑1 (MQ=255) tGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCCGGCGA‑GCCCCCGCAGAGGCCTCCACAg > 1:279396/1‑149 (MQ=255) cttgcttgTCCACAATTTATTTGTGGTATGCTACTGTCAGCGTAGTTCAGGGTGCGATAAACATCACTGACGGGGGCCATGGGGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCTAAGAGGCCTCCACAGCCATGt < 4:140008/149‑1 (MQ=255) cttgTGCACAAATGATTTGTGGGTTGCGCCTTTTCGCGTTGTTCTGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGGGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCa < 8:332599/149‑1 (MQ=255) cttgTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCa < 5:120035/149‑1 (MQ=255) gtgCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGt < 7:271316/148‑1 (MQ=255) gtgCAAATATGTTTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCTATAAACATCACTGACGGGGGCCATGCTGGAATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGt < 2:279396/148‑1 (MQ=255) cacaAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTATTAGCGGGCGA‑GCCCGCGAAACGGCCGCCACAGCCATGTATCAggta > 3:67718/1‑144 (MQ=255) acaAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTAGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCAAGTATAAGTATCTg > 5:190239/1‑149 (MQ=255) acaAATCA‑TTGGGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGc < 1:325573/149‑1 (MQ=255) aTTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGTGGAGGCCTCTTCGCGGGCTC‑GCCCGCGAaga < 1:259272/114‑1 (MQ=38) aTTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGTGGAGGCCTCTTCGCGGGCTC‑GCCCGCGAaga > 2:259272/1‑114 (MQ=38) ggACTGTGAGGGTAGTTCAGGGTTCTATAAACATCAGTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGGGGGGGCGTCTTCGCGGGCGA‑GCCCGGGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCa < 6:190239/148‑1 (MQ=255) cGACTGTGAGCGTTTTTCAGGGTGCTATAAACATCACTGACGGGGGCCATGCTGGAATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATc < 7:315449/148‑1 (MQ=255) cAGGGTTCGATAAACATCACTGACGGGGTCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATcccc < 3:161701/148‑1 (MQ=255) gTTGGATAAACATCACTCACGGCGGCCATGCGGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTcc < 6:356186/149‑1 (MQ=255) tAACCATCACTGACGGGGGCCTGGCTGGATTTTTGGGTGCCGGCGGGGGCCTCTGCGCGGGCGC‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAAcc < 5:225822/147‑1 (MQ=255) aaCATCACTGACGGGGGCCATGGTGGCTTTTTTGGTGCGTGCGGGGGCCTTTTCGCGGGCGA‑TGCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTa < 2:315251/149‑1 (MQ=255) aCATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAagag > 8:343811/1‑73 (MQ=255) aCATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAagag < 7:343811/73‑1 (MQ=255) aCATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTAc < 6:71166/149‑1 (MQ=255) aTCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCGCTTCGCGGGCGC‑GGCCGCGCAGAGGGCGCCCCCGCCAGGTATCAGGTTATGCCATATGCAGAAAACCTCAGGCAGCGGGCCTCCCCCTTCCTACCGcg > 8:319813/1‑144 (MQ=255) aCTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATc > 7:231985/1‑102 (MQ=255) aCTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATc < 8:231985/102‑1 (MQ=255) aCGGGGGCCATGCTGGCTTTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAg < 2:231791/149‑1 (MQ=255) ccATGCTGGCATTTTTGGTGCCTGCGGGGGCCACTTAGCCGGCGA‑GCCCGCGAACAGGCCGACCCACCCCAGTAACAGTATAATCCATATACCGAAACCAAAACGCCTACGCCAACCCCGGTCCCACCGCTACCATTAACAAggcggcg > 2:119781/1‑148 (MQ=255) ggCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAg < 6:286033/135‑1 (MQ=255) ggCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAg > 5:286033/1‑135 (MQ=255) tttttGGCGCCGGGGGGCGCTTCTGCGGGGTCGACGCGCTCTTAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCaa < 1:119781/148‑1 (MQ=255) ttGGTGCCTGCGGGGGACTCTTCGCGGGCGA‑GCCCGCTAAGAGGCCTACACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGaa < 7:301408/148‑1 (MQ=255) ggggggCGTGTTCGCGGGCGA‑CCCCGAGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGGAGATCAAAATGc < 3:3422/148‑1 (MQ=255) ttCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGtt < 7:89673/143‑1 (MQ=255) ttCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGtt > 8:89673/1‑143 (MQ=255) gcgGGCGA‑GCCCGCTAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAAt < 3:177149/148‑1 (MQ=255) cgGGCGA‑GCCCGCGAAGAGGCCGCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAATGc < 4:67718/149‑1 (MQ=255) | GACGCATCAACGCCATGCTGGCTCCTTGCTTGTGCACAAATGATTTGTGGGATGCGACTGTGAGCGTAGTTCAGGGTTCGATAAACATCACTGACGGGGGCCATGCTGGCATTTTTGGTGCCTGCGGGGGCCTCTTCGCGGGCGA‑GCCCGCGAAGAGGCCTCCACAGCCATGTATCAGTATCTGCCATATCCAGAAACCATCAGGCATCGGCCATCCCCGTTCCAACCGCTACCTTTCACAGGGAGGCTCACATTCAAGGAAGATCAAAATGCCGTTAGCCGAATGC > NC_002947/5903021‑5903307 |
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: ‑ |