| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 104,052 | G→T | 14.1% | 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 | 14.1% | 858.7 / 22.6 | 298 | intergenic (+91/‑140) | lpxC/secM | UDP‑3‑O‑acyl N‑acetylglucosamine deacetylase/regulator of secA translation |
| Reads supporting (aligned to +/- strand): ref base G (53/198); new base T (39/3); total (97/201) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.47e-19 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 333 total aligned reads displayed.
TTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGT > CP009273/103986‑104118 | ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGACTTTTATAaga < 1:23694209/68‑1 (MQ=255)ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:18399591/68‑1 (MQ=255)ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:20755065/68‑1 (MQ=255)ttCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:30205378/68‑1 (MQ=255)ttCGACTGGCAAATCTGGCACTCACTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAaga < 1:24562315/68‑1 (MQ=255) tCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAagag < 1:15476876/68‑1 (MQ=255) cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGc < 1:26665586/68‑1 (MQ=255) cGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGc < 1:6419734/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:31860985/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:18023743/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:16160483/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:26346397/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:15753145/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:30661221/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:13874777/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:474720/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:5803872/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:12845267/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:6312734/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:11357833/68‑1 (MQ=255) cTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:855993/68‑1 (MQ=255) cTGGCAAATATGGCACTCTCTCCGTCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCtat < 1:21353831/68‑1 (MQ=255) ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATaa < 1:7490161/68‑1 (MQ=255) ggCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATaa < 1:25310194/68‑1 (MQ=255) cTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TGTTTTTTTTTATTTTATAAGAGCTAAAAAAAAAgg > 1:911907/1‑68 (MQ=255) ggCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTg < 1:5521882/68‑1 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAATAGCTATAAAAAACGGTGCGa > 1:10240514/1‑68 (MQ=255) aCTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAAAGGTGCGa > 1:12056556/1‑68 (MQ=255) ctctctCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGGTATAAAAAACGGTGGGa > 1:11811097/1‑67 (MQ=255) tctctcCGGCCAGGTGAACCTGTCG‑TTTTTTTTTGAATTTTTTAATACCAATAAAAAAAGGTGCGAAc > 1:30398265/1‑68 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTTTAAGAGCTATAAAAAACGGTGCGAACGCt < 1:10034334/68‑1 (MQ=255) ctcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCt < 1:20019976/68‑1 (MQ=255) tcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAAc > 1:10136082/1‑64 (MQ=255) tcCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTg < 1:26060249/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAACCGGTGCGAACGCTGt < 1:9389066/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:2472999/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:6954205/68‑1 (MQ=255) ccGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:20418192/68‑1 (MQ=255) ccGGCCAGGTGAACCAGGCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGt < 1:355491/68‑1 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTTATTTTATTAGAGCTTTAAAAAACGGTGCGAACGCGGgttt > 1:12277848/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTTATTTTAATAGAGCTTTAAAAAAAGGTGGGGACGCTGgttt > 1:30544762/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAATAACTATTAAAAAATGTGCGAACGCCGtttt > 1:1857758/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTATAAGAGCTATAAAAAACGGTGCGAAAGCTGttt > 1:10502493/1‑67 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTTAATTTTAAAATAGCAAAAAAAAAAACTGCGAACCCTGtttt > 1:24061610/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGTATTTTTTAAAAGCTATAAAAAACGGTGGGAACGCGGtttt > 1:12588081/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGTATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGtttt > 1:23132573/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATTAGAGCTATAAAAAACGGTGCGAACGCGGtttt > 1:29060050/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAATAGCTATAAAAAACGGTGCGAACGCTGtttt > 1:2872336/1‑68 (MQ=255) gCCAGGTGAACCAGTCG‑‑TTTTTTTTGAATTTTATAAAAGCTATAAAAAACGGTTCCAACCCTGtttta > 1:4268575/1‑67 (MQ=255) gCCAGGTGAACCAGTCG‑‑TTTTTTTTGAACTTTATAAGAGCTATAAAAAACGGTGCGAACGCGGttt > 1:13546638/1‑66 (MQ=255) ccAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAATAGCTATAAAAAACGGTGCGAACGCTGtttta > 1:27786653/1‑67 (MQ=255) ccAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAATAGCTATAAAAAACGGTGCGAACGCTGtttt < 1:6257813/67‑1 (MQ=255) ccAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGtttt < 1:4432807/67‑1 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTTTATTTTATAATAGCTATAAAAAACGGTGCGAACGCTGttttgt > 1:17232348/1‑66 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTTTAATAGCGATAAAAAACGGTGCGAAACCTGttttgt > 1:3223596/1‑66 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCt < 1:31683295/68‑1 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCt < 1:3121394/68‑1 (MQ=255) cAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCt < 1:15937919/68‑1 (MQ=255) tGAACCAGTCGTTTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCt < 1:7827741/65‑1 (MQ=255) ccAGTCG‑TTTTTTTTTTAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTATTAAGCACt > 1:25114375/1‑68 (MQ=255) cAGTCG‑TGTTTTTTTGAATTTTATAATAGCTATAAAAAACGGTGCGAACGCTGTTTTATTAAGCACtt > 1:20603598/1‑68 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACttt < 1:13155318/65‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACttt < 1:2761965/65‑1 (MQ=255) cG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTcc < 1:2169143/68‑1 (MQ=255) ttttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGc < 1:5331611/67‑1 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca > 1:19174047/1‑68 (MQ=255) ttttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGcaca < 1:22695989/68‑1 (MQ=255) tttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACaa < 1:27287248/68‑1 (MQ=255) tttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACaa < 1:165239/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:15009813/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:5728582/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:22893655/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:16953771/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:8345985/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:14337915/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:10916448/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:16130787/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:14584670/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:14880989/68‑1 (MQ=255) ttttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAAc < 1:2831276/68‑1 (MQ=255) tttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:1984987/68‑1 (MQ=255) tttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:28909068/68‑1 (MQ=255) tttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:26521311/68‑1 (MQ=255) tttGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACt < 1:13420232/68‑1 (MQ=255) ttGAATTTTATATGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACtt < 1:25544618/68‑1 (MQ=255) gAATTTTATAATAGCTATAAAAAACGGTGAGAACTCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:16354847/68‑1 (MQ=255) gAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:11650326/68‑1 (MQ=255) gAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTAt < 1:19425386/68‑1 (MQ=255) aTTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCt < 1:17287034/68‑1 (MQ=255) ttATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:8325230/68‑1 (MQ=255) ttATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCa < 1:31548452/68‑1 (MQ=255) ataAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAtt < 1:17565864/68‑1 (MQ=255) ataAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCAt > 1:23471172/1‑67 (MQ=255) taAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTc > 1:26792684/1‑68 (MQ=255) aaGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCg > 1:22096719/1‑68 (MQ=255) agagCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt < 1:21834882/68‑1 (MQ=255) agagCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt < 1:20281396/68‑1 (MQ=255) agagCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt > 1:24301318/1‑68 (MQ=255) agagCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt < 1:30731483/68‑1 (MQ=255) agagCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGt > 1:9290064/1‑68 (MQ=255) | TTCGACTGGCAAATCTGGCACTCTCTCCGGCCAGGTGAACCAGTCG‑TTTTTTTTTGAATTTTATAAGAGCTATAAAAAACGGTGCGAACGCTGTTTTCTTAAGCACTTTTCCGCACAACTTATCTTCATTCGT > CP009273/103986‑104118 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |