| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 104,052 | G→T | 8.4% | intergenic (+91/‑140) | lpxC → / → secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 104,052 | 0 | G | T | 8.4% | 1072.4 / 8.7 | 344 | intergenic (+91/‑140) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| Reads supporting (aligned to +/- strand): ref base G (57/248); new base T (26/2); total (94/250) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.76e-15 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 383 total aligned reads displayed.
ATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGT > CP009273/103985‑104118 | ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:8320735/68‑1 (MQ=255) ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:16887465/68‑1 (MQ=255) ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:26143792/68‑1 (MQ=255) ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:10119498/68‑1 (MQ=255) ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:33199084/68‑1 (MQ=255) cGACTGGCAAATCTGGCTCTCTCTCCGGCCAGGTTAACCAGTCG‑TTTTTTTTTGAATTTTATAATAGc < 1:17411218/68‑1 (MQ=255) cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGc < 1:35477518/68‑1 (MQ=255) gACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCt < 1:27767915/68‑1 (MQ=255) aCTGGCAAATCTGGCACTCTCTCCGGCCTGGTGAACCAGTCG‑TTTTTTTTTGATTTTTTTTAGAGCta > 1:20128900/1‑68 (MQ=255) aCTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTTAATTTTATAAGAGCta > 1:13651773/1‑68 (MQ=255) cTGGCAAATCTGGCAGTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:13533504/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGTTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:32744360/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:36564419/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:27604963/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:32214522/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:3083207/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:4572648/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:4650148/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:5508988/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:24333679/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:23093836/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:22245629/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:6629842/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:7697880/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:9661953/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:11494331/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:14773788/68‑1 (MQ=255) cTGGCAAATCTGGCACACTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:3754519/68‑1 (MQ=255) cTGGCACTCTCTCCGGCCAGGTGAACCAGTCGTTTTTTTTTTGTAATTTTTAATAGGTTT‑aaaaaaac > 1:11142199/1‑66 (MQ=255) cTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACgg > 1:15632826/1‑68 (MQ=255) cTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACgg < 1:31076046/68‑1 (MQ=255) cTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTGAATTTTATAACACCTAT‑AAAAAACgg > 1:777250/1‑68 (MQ=255) ggCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTg < 1:21988756/68‑1 (MQ=255) ggCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTg < 1:19357754/68‑1 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGTATTTTTTAATAGCTAT‑AAAAAACGGTGCGa > 1:4863635/1‑68 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTTTAAGAGCTAT‑AAAAAACGGTGCGa > 1:34176371/1‑68 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGa > 1:11576031/1‑68 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTTATTTTTTTAATAGCTAT‑AAAAAACCGTGCgt > 1:36138926/1‑67 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTGAATTTTATTATAGCTAT‑AAAAAAACGTGCgc > 1:19101728/1‑67 (MQ=255) ctctctCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGTATTTTATAAGAGCTAT‑AAAAAACGGTGCGa > 1:3299595/1‑67 (MQ=255) tctctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTTTAATAGCTAT‑AAAAAACGGTGCGCAc > 1:14643266/1‑68 (MQ=255) ctctcCGGCCAGGTGAACCAGTCG‑‑TTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGc < 1:5889623/68‑1 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCt < 1:10209585/68‑1 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCt < 1:28348731/68‑1 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCt < 1:25216476/68‑1 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCt < 1:1337977/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGt < 1:30381601/68‑1 (MQ=255) ggCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAATAGCTAT‑AAAAAAAGGTGCGAAAGCTGttt > 1:20490431/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAATAGCTAT‑AAAAAAAGGTTGGAAAGCTGtttt > 1:12269372/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAATAGCTAT‑AAAAAAAGGTGCGAACGCGGtttt > 1:10698331/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCGGtttt > 1:34503998/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACCCTGtttt > 1:703721/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTTTAAGAGCTAT‑AAAAAACGGTGGGCACGCGGtttt > 1:21501692/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGtttt > 1:16257838/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGttt > 1:26593835/1‑67 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGAGCGAACGGTGtttt > 1:26386927/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TGTTTTTTT‑TATTTTATAATAGCTAT‑AAAAAACGGTGCGAACGCGGttt > 1:29182159/1‑66 (MQ=255) ccAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGtttta > 1:34845650/1‑67 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGttttat > 1:17971763/1‑66 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCt < 1:6261736/68‑1 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAAAGGTGCGAACGCGGTTTTCt > 1:6814639/1‑68 (MQ=255) cAGGTGAACCAGTCG‑TGTTTTTTTTAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGttttgt > 1:12608404/1‑66 (MQ=255) tGAACCAGTCG‑TGTTTTTTTGAATTTTTTAAGAGCTAT‑AAAAAACGGTGCGAACGGTGGTTTCTTaa > 1:25486906/1‑67 (MQ=255) cAGTCG‑TTTTTTTTTTAATTTTATAATAACAAT‑AAAAAAACGTTCGAACCCTGTTTTATTAAAAACtt > 1:36326394/1‑68 (MQ=255) cAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAAAGGTGCGAACGCTGTTTTATTAAGCAcat > 1:19576378/1‑66 (MQ=255) cG‑TTTTTTTTTTAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc < 1:8775506/68‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACttt < 1:30510723/66‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACttt < 1:14999242/65‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc < 1:8949325/68‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc < 1:35849294/68‑1 (MQ=255) tttttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcac > 1:29615739/1‑68 (MQ=255) ttttttGAATTTTATAAGAGCTAT‑AATAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:34588578/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:4004837/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:11961754/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:28940286/68‑1 (MQ=255) ttttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:30170292/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:13267747/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:33284138/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:32833939/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:426804/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:15368427/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:1435315/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:6526034/68‑1 (MQ=255) tttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:34119437/68‑1 (MQ=255) tttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:24091928/68‑1 (MQ=255) tttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:20907939/68‑1 (MQ=255) tttGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:15433735/68‑1 (MQ=255) gAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:21705986/68‑1 (MQ=255) gAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:17644549/68‑1 (MQ=255) gAATTATATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:18864802/68‑1 (MQ=255) aTTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCt < 1:7379254/68‑1 (MQ=255) aTTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCt > 1:21076291/1‑68 (MQ=255) ttATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:31879567/68‑1 (MQ=255) ttATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:29926837/68‑1 (MQ=255) ttATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:27498792/68‑1 (MQ=255) ttATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:23960346/68‑1 (MQ=255) ttATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:23294790/68‑1 (MQ=255) ttATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:18411491/68‑1 (MQ=255) ttATAAGACCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:5208094/68‑1 (MQ=255) ataAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAtt < 1:16649211/68‑1 (MQ=255) | ATTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTAT‑AAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGT > CP009273/103985‑104118 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |