Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 1,677,630 | G→C | 9.1% | intergenic (+23/‑108) | thrC → / → PP_5471 | threonine synthase/two‑component system response regulator |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 1,677,630 | 0 | G | C | 9.1% | 166.6 / 7.0 | 55 | intergenic (+23/‑108) | thrC/PP_5471 | threonine synthase/two‑component system response regulator |
Reads supporting (aligned to +/- strand): ref base G (29/21); new base C (3/2); total (32/23) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.37e-01 |
ACCCGCGCACCTCAGCGACCTGTTCAGCCGTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGATTCACCAGGCTCGCCCAT > NC_002947/1677490‑1677777 | aCCCGCGCACCTCAGCGACCTGTTCAGCCGTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGccc > 3:94773/1‑149 (MQ=255) gcgcACCTCAGCGACCTGTTCAGCCGTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCGCTGCAGCCCCaaa < 7:50786/149‑2 (MQ=255) aCCTCAGCGACCTGTTCAGCCGTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGtct > 5:262449/1‑149 (MQ=255) tCAGCGACCTGTTCAGCCGTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAg > 7:290130/1‑149 (MQ=255) ttCAGCCGTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCcctc > 7:99382/1‑149 (MQ=255) ccGTGAAGAGCGTTGCACGCTCCTCGACAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAAACGCGGAAAGACGCAGTAATTGCATGGCGTTTGTGTCTGCAGCGCAGCACCAACGTCTCAGCCCTTACcctcctct > 8:7980/1‑146 (MQ=255) gTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCTCGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTa > 7:208234/1‑149 (MQ=255) gTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTa > 6:193331/1‑149 (MQ=255) tGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTAt < 5:193331/149‑1 (MQ=255) aCGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTa > 5:9465/1‑149 (MQ=255) cTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGc < 3:162420/149‑1 (MQ=255) cTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGc > 4:162420/1‑149 (MQ=255) ggCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCt > 6:138452/1‑149 (MQ=255) ccAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGc > 4:138305/1‑149 (MQ=255) aaCGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCg > 2:297802/1‑149 (MQ=255) cGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCggg < 6:262449/149‑1 (MQ=255) cGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGAAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCggg < 5:53134/149‑1 (MQ=255) gACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACTGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCCTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGgc < 7:7980/149‑1 (MQ=255) ccTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGgcgc > 8:258193/1‑149 (MQ=255) tGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATc > 3:202611/1‑127 (MQ=255) tGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATc < 4:202611/127‑1 (MQ=255) aaGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCaa < 3:138305/148‑1 (MQ=255) gCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCa > 1:177788/1‑148 (MQ=255) cTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCcctcct < 3:175061/105‑1 (MQ=255) cTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCcctcct > 4:175061/1‑105 (MQ=255) tGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATa > 1:314015/1‑148 (MQ=255) gTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATaaa > 1:190375/1‑149 (MQ=255) aGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAg > 7:149260/1‑149 (MQ=255) gggCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGc < 7:258193/149‑1 (MQ=255) ggCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGcc > 8:152046/1‑149 (MQ=255) tttGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGt > 8:10234/1‑149 (MQ=255) tGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGtc < 2:190375/148‑1 (MQ=255) ccagcACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCAt > 4:280124/1‑149 (MQ=255) cagcACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCAt > 3:186499/1‑148 (MQ=255) gcACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATaa < 7:67715/128‑1 (MQ=255) gcACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATaa > 8:67715/1‑128 (MQ=255) cACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTACTCCCATCAgg < 2:177788/149‑1 (MQ=255) aCGGCAACCGCGGCAAGCCTCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCACCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAgta < 8:290130/149‑3 (MQ=255) ccGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCt > 5:186416/1‑148 (MQ=255) ccGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTc < 4:186499/149‑1 (MQ=255) gcgGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCAt < 8:149260/149‑1 (MQ=255) gcgGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCAt < 7:152046/149‑1 (MQ=255) tAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGc < 6:125186/83‑1 (MQ=255) tAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGc > 5:125186/1‑83 (MQ=255) ttGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATgtgt < 6:9465/149‑1 (MQ=255) ttGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATgtgt < 8:208234/149‑1 (MQ=255) cATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGa < 2:314015/149‑1 (MQ=255) tgagacgttGGGGCTGCGCTGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATgtgt < 6:172652/138‑1 (MQ=255) tgagacgttGGGGCTGCGCTGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATgtgt > 5:172652/8‑145 (MQ=255) aTGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGAt > 4:39444/1‑149 (MQ=255) gTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCgg > 1:302853/1‑100 (MQ=255) gTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCgg < 2:302853/100‑1 (MQ=255) gttGGGGCTGCGCTGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGATTCAc > 5:145606/2‑147 (MQ=255) ttGGGGCTGCGCTGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGATTCACCAg > 6:290328/1‑149 (MQ=255) gggCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGATTCACCAGGCt > 2:322441/1‑149 (MQ=255) agcgcagcCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGATTCACCAGGCTCGCCCAt > 8:210282/1‑149 (MQ=255) | ACCCGCGCACCTCAGCGACCTGTTCAGCCGTGAAGAGCGTTGCACGGTCCTGGCCAACGACCTGAAGGCTGTACAGGGCTTTGTCAGCCAGCACGGCAACCGCGGCAAGCCGCTGTAATTGCATGGCGTTTGGGGCTGCAGCGCAGCCCCAACGTCTCAGCCTTTTCCCTCCTGTCTATCAGAAACATCCTATTCAGCCTGCCGGGCGCCAAGCATAAATTAGCCGGTCCTCCCATCAGGAGCGGCTCATGCACCAGCCCTATGTGTTGATTCACCAGGCTCGCCCAT > NC_002947/1677490‑1677777 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |