| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,593 | C→G | 7.6% | pseudogene (945/2513 nt) | ydbA → | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 1,460,593 | 0 | C | G | 7.6% | 1758.3 / 59.7 | 563 | pseudogene (945/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (306/205); new base G (22/16); total (342/221) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 8.64e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 656 total aligned reads displayed.
TCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCA > CP009273/1460526‑1460660 | cGGTGACAAGGCCTTTGTCAATAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:1980333/68‑1 (MQ=14) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:23781715/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAg < 1:23960387/67‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:21487748/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:20611923/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:57443039/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:31247746/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:55890419/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:2943418/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:51123829/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:47857033/68‑1 (MQ=255) cGGGGACAAGGCCTTCGTCAATAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:35651507/68‑1 (MQ=17) ggTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGAt > 1:27245882/1‑68 (MQ=255) gtcAAGGCCATCGTCATTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTaa < 1:50983965/66‑1 (MQ=255) aCAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt > 1:51373667/1‑68 (MQ=255) aCAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt > 1:14653430/1‑68 (MQ=255) aCAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt > 1:50147298/1‑68 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTaagg > 1:44114185/1‑66 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt < 1:3234192/67‑1 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATg > 1:46408624/1‑68 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATg > 1:24764087/1‑68 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGGGGCACCGGCACGCAGATCaacg > 1:12018302/1‑66 (MQ=11) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAAAGGTGGCACCGGCACGCAGATTaacg > 1:8066967/1‑66 (MQ=14) aaGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATgg < 1:13332814/68‑1 (MQ=255) aaGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATgg < 1:52063077/68‑1 (MQ=255) aaGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATgg < 1:34287157/68‑1 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATTAAAGGtg > 1:3787591/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtg > 1:50481957/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtg > 1:1905935/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtg > 1:28455720/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtg > 1:22043141/1‑68 (MQ=255) gCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga > 1:49315619/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtgat > 1:34772714/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga < 1:30173908/67‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga < 1:45429473/67‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtg < 1:1652461/66‑1 (MQ=255) tCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGAc < 1:6858696/68‑1 (MQ=255) cGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGAc > 1:22610027/1‑67 (MQ=255) cGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACg < 1:38951384/68‑1 (MQ=255) gTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACg > 1:56826392/1‑67 (MQ=255) cAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATTAACGGTGATGACGcc < 1:3728072/67‑1 (MQ=255) cAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGcc < 1:45006492/67‑1 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg > 1:5458257/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg > 1:41637378/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg > 1:42503781/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg < 1:53229887/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:1766581/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:23426269/68‑1 (MQ=255) aCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATTAATGGTGATGACGCCACGGCa > 1:2589874/1‑68 (MQ=25) aCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCa > 1:40293430/1‑68 (MQ=255) aCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCa > 1:9297218/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:1002195/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa < 1:18102097/68‑1 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:15253847/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:28973333/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:37675619/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACAAACTGTTGCACCGGAACCAAGAATAAAGGAGATTACGCCACGGCaa > 1:26389500/1‑68 (MQ=9) gAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaaa < 1:52482567/68‑1 (MQ=255) aGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaaca < 1:19540986/68‑1 (MQ=255) ggCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaaca > 1:32990098/1‑67 (MQ=255) gCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaacaac > 1:51574807/1‑68 (MQ=255) gCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaacaac > 1:41061643/1‑68 (MQ=255) cGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaacaaca > 1:13902363/1‑68 (MQ=255) tcACCATCACAAACGGCTGCACCGTCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACgg < 1:4281775/66‑1 (MQ=14) gCACCATCACCAACGGTGGCACCGGCACTCAGATAAAAGGTGAGGACGCCCAGGCAATAAAAAACGGc > 1:43561566/1‑68 (MQ=2) gCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACg < 1:53977916/66‑1 (MQ=255) gCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGc > 1:33344507/1‑68 (MQ=255) aCCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCaa > 1:49676394/1‑68 (MQ=255) aCCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCaa > 1:18413634/1‑68 (MQ=255) aTCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCaaaa > 1:39899429/1‑67 (MQ=40) aCCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAacca > 1:6358088/1‑67 (MQ=40) cAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCg > 1:30887764/1‑68 (MQ=40) cAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCg > 1:16173461/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:35195674/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:25358748/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:36162410/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:7781768/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGAAGACGCCACCGCGaaaaa > 1:8593378/1‑49 (MQ=14) aCGGTGGCACCGGCACCCAGATTAAAGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCggt > 1:5902334/1‑66 (MQ=255) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:7077119/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:22809539/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:36841146/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:48507777/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:28085515/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAAGGGTGAGGACGCCACGGCGAAAAACAGAGGAAAAACCACTGTTGa > 1:39413981/1‑68 (MQ=11) gTGGCACCGGCACCCAGATTAATGGTGATGAAGCCAAGGAAAACAAAAACGGCAAAACCACCGTTGAc > 1:10558975/1‑68 (MQ=14) tGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACg > 1:20165417/1‑50 (MQ=255) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:11615735/67‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:33691031/67‑1 (MQ=40) caccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGc < 1:41964535/67‑1 (MQ=40) caccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAAAGGCAAAACCACCGTTGACGGCa > 1:31837020/1‑68 (MQ=255) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAacca > 1:40492851/1‑55 (MQ=255) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCaa > 1:12543979/1‑68 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:46642181/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:55097145/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:16838671/68‑1 (MQ=40) accCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGAtt < 1:47364962/67‑1 (MQ=40) accCAGATTAATGGTGATGACGCCACGGCAAAAAACATCGGAAAAACCACGGTTGACGGAAAGGAtt > 1:31581553/1‑67 (MQ=14) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:17205775/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCa < 1:12882684/68‑1 (MQ=37) | TCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCA > CP009273/1460526‑1460660 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |