| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,593 | C→G | 8.9% | 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 | 8.9% | 956.4 / 38.5 | 312 | pseudogene (945/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (177/104); new base G (19/8); total (199/113) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 5.33e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 370 total aligned reads displayed.
TCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCC > CP009273/1460526‑1460659 | tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggcacc < 1:23650692/68‑1 (MQ=255)tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggcacc < 1:7077466/68‑1 (MQ=255) cGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCAccc > 1:28988115/1‑68 (MQ=255) gACGGTGACAAGGCCATCGTCAATAACGAAGTCTAGAGCACCATCACCAACGGTGGCACCGGCACCCa < 1:19023855/68‑1 (MQ=255) aCGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAg > 1:25852808/1‑68 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:11650824/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:20596053/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:19746603/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:19483666/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:8577532/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:29758241/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:30804308/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:9637998/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:23983417/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:13682754/68‑1 (MQ=255) tGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGAtt < 1:22584050/67‑1 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCCCCCAGATTAATg > 1:20765981/1‑68 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt < 1:3138484/67‑1 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATg > 1:25935155/1‑68 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGAGGCACCGGCACGCAGATaaacg > 1:9372476/1‑66 (MQ=14) aaGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATgg < 1:18142969/68‑1 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACGATCACCAACGGTGGCACCGGCACGCAGATAAAAGGta > 1:31192330/1‑67 (MQ=14) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACTCAGATAAACGGtt > 1:15004426/1‑67 (MQ=11) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATGAACGGta > 1:16715800/1‑67 (MQ=14) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAGGGtg > 1:12025329/1‑68 (MQ=255) gCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga > 1:15612329/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTATTGGtgat > 1:1016059/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtgat > 1:28291131/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtgat > 1:29393944/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtgat > 1:28835314/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga < 1:13883205/67‑1 (MQ=255) tCGTCAATAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGATTAACGGTGATGAc < 1:27648369/68‑1 (MQ=11) cGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACg < 1:21250718/68‑1 (MQ=255) gTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACg > 1:29052219/1‑67 (MQ=255) tCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGcc > 1:11762552/1‑68 (MQ=255) tCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGc > 1:17201040/1‑67 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg > 1:11220223/1‑68 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGCCGCCACGGc > 1:29867938/1‑68 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:20538509/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:31574255/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc > 1:18568283/1‑68 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc > 1:3798359/1‑68 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:26822166/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:12697040/68‑1 (MQ=255) aCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCa > 1:28618345/1‑68 (MQ=255) aCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCa > 1:21825348/1‑68 (MQ=255) aCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAAGGTGATGACGCCACGGCa > 1:28087621/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:5729668/1‑68 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:8819869/1‑68 (MQ=255) gAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:4298146/1‑67 (MQ=255) ggCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGCCGCCACGGCAaaca > 1:24718109/1‑67 (MQ=255) ggCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaaca > 1:30334724/1‑67 (MQ=255) ggCGAGAGCACAATCACCAACGGAGGCACCGGCACTCAGATAAAGGGTGAAGACGCCACGGCgaata > 1:1984404/1‑65 (MQ=11) cGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAcacaaca > 1:3176514/1‑68 (MQ=255) cGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaacaaca > 1:11066683/1‑68 (MQ=255) cGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaacaaca > 1:4911512/1‑68 (MQ=255) cGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaacaaca > 1:913823/1‑68 (MQ=255) gCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACgg < 1:6557185/67‑1 (MQ=255) gCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGc > 1:3529623/1‑68 (MQ=255) aCCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCa < 1:13365220/67‑1 (MQ=255) ccATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCaaa < 1:21597950/68‑1 (MQ=40) cACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCGAAAAACACCGGCAAAacc > 1:16002441/1‑67 (MQ=14) aCCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAaccac < 1:328260/68‑1 (MQ=40) aCCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAacca > 1:10804000/1‑67 (MQ=40) aCCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAacca > 1:20375312/1‑67 (MQ=40) aCCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAacca > 1:7656775/1‑67 (MQ=40) ccAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAaacaa > 1:5950091/1‑52 (MQ=255) ccAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAaccacc > 1:1653379/1‑68 (MQ=40) cAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCg > 1:2405565/1‑68 (MQ=40) aaaCGGTGGCACCGGCACCCAGATTAATGGTGAGGACGCCACGGCAAACAACAACTGCAAAACCACCg > 1:22254046/2‑68 (MQ=14) aaCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGt < 1:22952996/68‑1 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCGAAAAACATGGGCAAAACCACAGtt > 1:25143432/1‑68 (MQ=14) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAAGAACGGCAAAACCACCGtt > 1:23234415/1‑68 (MQ=255) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:17018361/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:32068086/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:2008547/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:14040838/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:14717718/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAAAAACAAAGGAAAAACCACCGtt > 1:7337560/1‑68 (MQ=14) cGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:8101663/1‑68 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCCAAAAACAGAGGAAAAACCACGGTTGa > 1:27263590/1‑68 (MQ=14) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:26721904/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:3059319/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:24382270/1‑67 (MQ=40) gTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACACAGGAAAAACCACCGTTGaa > 1:10418836/1‑67 (MQ=14) tGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGAc < 1:17907873/67‑1 (MQ=40) tGGCACCGGCACCCAGATTAATGGTGAAGAAGACACGGCAAACAACAAACGCAAAACCACCGTAGACg > 1:26938147/1‑68 (MQ=14) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACCACAACGGCAAAACCACCGTTGACg < 1:23110851/67‑1 (MQ=255) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACgg < 1:9863523/68‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:4420424/67‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:8352428/67‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:18413279/67‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:163984/67‑1 (MQ=40) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCaa > 1:5548418/1‑68 (MQ=40) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCaa > 1:4682415/1‑68 (MQ=40) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCaa > 1:26524312/1‑68 (MQ=40) cgtcaccCAGATTAATGGTGATTAAGCCACTGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:25328686/65‑1 (MQ=14) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:15446324/68‑1 (MQ=40) ggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGa < 1:14558367/68‑1 (MQ=40) accCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGAtt > 1:4993807/1‑67 (MQ=40) | TCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCC > CP009273/1460526‑1460659 |
| 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: ‑ |