| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | NC_002947 | 812,310 | C→T | 9.4% | intergenic (‑59/‑169) | PP_0698 ← / → PP_0699 | LysR family transcriptional regulator/LysE family transporter |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_002947 | 812,310 | 0 | C | T | 9.4% | 144.2 / 5.0 | 53 | intergenic (‑59/‑169) | PP_0698/PP_0699 | LysR family transcriptional regulator/LysE family transporter |
| Reads supporting (aligned to +/- strand): ref base C (21/27); new base T (2/3); total (23/30) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.51e-01 | |||||||||||
ACGTGCAAGTGCTCGGCGGCGCGCACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATCGGCGGTCTGTGCATTTC > NC_002947/812163‑812454 | aCGTGCAAGTGCTCGGCGGCGCGCACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TTAACCCGCTCCTACATGGCcaca > 5:378810/1‑149 (MQ=255) cAAGTGCTCGGCGGCGCGCACGAAGCTCTCGGGCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGGTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATAttt < 1:235487/149‑1 (MQ=255) aGTGCTCGGCGGCGCGCACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTcc < 5:337615/149‑1 (MQ=255) gTGCTCGGCGGCGCGCACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTccc < 6:378810/149‑1 (MQ=255) tGCTCGGCGGCGCGCACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCt < 5:334718/149‑1 (MQ=255) tCGGCGGCGCGCACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTg > 7:226198/1‑147 (MQ=255) cgcgcACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAg < 7:292546/149‑1 (MQ=255) gcgcACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAgg < 4:251998/149‑1 (MQ=255) cACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGttt < 2:133762/149‑1 (MQ=255) cGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTAc < 4:163071/149‑1 (MQ=255) cGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTAc < 8:39294/149‑1 (MQ=255) gAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTAcc > 4:120400/1‑149 (MQ=255) aGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAGCCTGCCTT‑‑GGCCTCTTCGCGGG‑TAAACCTGCCCCTACAGGGAAATATGTGGCCATGTAGGAGCGGGTTTAccc < 5:226497/149‑1 (MQ=14) gCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCCTTGGCCTCTTCGCGGG‑TAAACCTGCCCCTACAGGGAAATATGTGGCCATGTAGGAGCGGGTTTAccc < 7:276700/149‑1 (MQ=17) ctctCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCcgc > 4:29174/1‑148 (MQ=255) cGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAaga < 8:226198/149‑1 (MQ=255) gTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCTGCCCCTACAGGGAAATATGTGGCCATGTAGGAGCGGGttt > 3:117912/1‑136 (MQ=18) gTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCTGCCCCTACAGGGAAATATGTGGCCATGTAGGAGCGGGttt < 4:117912/136‑1 (MQ=18) gTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAgg > 3:225690/1‑149 (MQ=255) cggcAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATCATATCCCTGTTCAG‑CTGGGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAaggc < 5:52943/149‑1 (MQ=255) gcAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCGCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAaggcag < 7:249776/149‑1 (MQ=255) aTGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCt < 5:78098/149‑1 (MQ=255) gTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCCGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACACGCGAAGAGGCCAAGGCAGGCTg > 7:161645/1‑148 (MQ=255) aGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACata > 7:359390/1‑149 (MQ=255) tAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATc > 7:83132/1‑149 (MQ=255) cGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCtgt < 5:145253/149‑1 (MQ=255) cGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCtgt < 3:120400/149‑1 (MQ=255) gCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCa > 7:117529/1‑148 (MQ=255) gTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGGCTAAACCCGCTCCTACATGGCCACATATTTCCCTGTa < 1:64585/94‑1 (MQ=255) gTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTa > 2:64585/1‑93 (MQ=255) gAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTa > 7:67997/1‑149 (MQ=255) gTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATc < 8:100418/149‑1 (MQ=255) gcggcAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTATTCGCGGG‑TAAACCCGCGCCTACATGGGCACATATTTACCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGGCGGGTGTACATATCTGTGAGCAAAACTAt > 4:379408/1‑145 (MQ=38) cATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTAGCCGCGAAGAGGCCAAGGCAGGCTGTAGATATCTGGGAGGAAAACTTTCAGATTCATCTCAg > 6:200450/1‑149 (MQ=38) cATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCa < 8:83132/148‑1 (MQ=255) cATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCa < 4:225690/148‑1 (MQ=255) tCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATaaa < 3:306647/148‑1 (MQ=255) ccTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCa < 6:354193/128‑1 (MQ=255) ccTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCa > 5:354193/1‑128 (MQ=255) ccTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCg > 3:307118/1‑149 (MQ=255) ttCAG‑CTGTGCC‑‑CGCCGCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTACCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGAt < 6:181026/147‑1 (MQ=255) cTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCg < 3:379408/149‑1 (MQ=255) ccTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTaa < 4:44601/149‑1 (MQ=255) tctTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAgc > 2:381956/1‑149 (MQ=255) cgcgGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAgcgc < 8:359390/147‑1 (MQ=255) cgcgGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCtt > 4:130243/1‑149 (MQ=255) ggggg‑TAAACCCTCTCCTACATGGCCTCATATTTCCCTGTAGGTGCAGGTTTACACGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTg < 8:161645/147‑1 (MQ=255) tAAACCTGCCCCTACAGGGAAATATGTGGCCATGTAGGAGCGGGGTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAACCTATCAGATGCAGCTCAGCATAAATCGATTTTTCCGCATCTGGTAGCGCTTgatgat > 6:317502/1‑149 (MQ=17) aCCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATcgg < 3:29174/149‑1 (MQ=255) ccGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATcggcg > 4:327284/1‑149 (MQ=255) ccGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATcggcg > 6:53764/1‑149 (MQ=255) gCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATCGGCGGt > 7:211209/1‑149 (MQ=255) cTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATCGGCGGTCtgt > 3:307645/1‑149 (MQ=255) ccACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATCGGCGGTCTGTGCATTTc > 7:227190/1‑148 (MQ=255) | ACGTGCAAGTGCTCGGCGGCGCGCACGAAGCTCTCGGTCTGGGCGGCAATGTCGAAGTAGCGGAAGGCGTTGAGTGGCGGCAGTTTCATGATATCCCTGTTCAG‑CTGTGCC‑‑GGCCTCTTCGCGGG‑TAAACCCGCTCCTACATGGCCACATATTTCCCTGTAGGGGCAGGTTTACCCGCGAAGAGGCCAAGGCAGGCTGTACATATCTGTGAGCAAAACTATCAGATTCATCTCAGCATAAATCGATTTTTCCGCATCTGTAAGCGCTTGATAATCGGCGGTCTGTGCATTTC > NC_002947/812163‑812454 |
| Alignment Legend |
|---|
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: ‑ |