| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,593 | C→G | 10.1% | 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 | 10.1% | 838.4 / 53.5 | 303 | pseudogene (945/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (160/102); new base G (12/15); total (183/120) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.03e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 350 total aligned reads displayed.
TCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCA > CP009273/1460526‑1460660 | gACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACGATCACCAAAGGAGGCACCGGCACTCa > 1:32840970/1‑68 (MQ=11) gACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCa > 1:8940294/1‑68 (MQ=255) aCGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAg > 1:32131641/1‑68 (MQ=255) aCGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAAAGGGGGCACCGGCACTCAg > 1:17464320/1‑68 (MQ=14) cGGTGACAAGGCGTTCGTCAAAAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:30278202/68‑1 (MQ=14) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:23661593/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCACCGGTGGCACCGGCACCCAGa < 1:30641936/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:2341985/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:30846993/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:28901805/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:25083398/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:24209798/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:12046285/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:553554/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGa < 1:5140778/68‑1 (MQ=255) cGGTGACAAGGCCATCGTCAAAAACGAAGGCGAGAGCGCCATCACCAACGGTGGCACCGGCACGCAGa < 1:9691554/68‑1 (MQ=17) cGGGGACAAGGCCCTCGTAAAAAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:26219390/68‑1 (MQ=14) cGGGGACAAGGCCATCGTCAAAAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGa < 1:21571239/68‑1 (MQ=17) ggTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGAt > 1:1849640/1‑68 (MQ=255) ggTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGAt > 1:21118890/1‑68 (MQ=255) tGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGAtt < 1:32512807/67‑1 (MQ=255) tGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGAtt < 1:836198/67‑1 (MQ=255) gACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTaa < 1:4098744/68‑1 (MQ=255) gACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTaa < 1:8873653/68‑1 (MQ=255) aCAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCCCCCAGATTAAt > 1:23279670/1‑68 (MQ=255) aCAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt > 1:14098527/1‑68 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt < 1:17147833/67‑1 (MQ=255) cAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAAt < 1:34120860/67‑1 (MQ=255) aaGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATgg < 1:33876784/68‑1 (MQ=255) aaGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATgg < 1:10923787/68‑1 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATTAACGGtg > 1:7570502/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACGCAGATTAAAGGtg > 1:25255876/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtg > 1:26442431/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtg > 1:4865368/1‑68 (MQ=255) ggCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCCCCACGCAGAGTAATGGtg > 1:34309081/1‑68 (MQ=18) gCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga > 1:3268504/1‑68 (MQ=255) gCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga > 1:13804922/1‑68 (MQ=255) gCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga > 1:7816888/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCTCCATCACCAACGGTGGCACCGGCACGCAGATTAACGGtga < 1:22872331/67‑1 (MQ=14) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtgat > 1:3572689/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtgat > 1:14240527/1‑68 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga < 1:27205300/67‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga < 1:15355597/67‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtga < 1:5906066/67‑1 (MQ=255) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGGGGCACCGGCACTCAGATAAAGGGtaag > 1:10227611/1‑65 (MQ=11) ccATCGTCAATAACGAAGGCGAGAGCACCATCACCAAAGGGGGCACCGGCACGCAGATAAAAGGtgag > 1:13473347/1‑67 (MQ=14) cATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGtgatg < 1:16579754/68‑1 (MQ=255) cGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGAc > 1:7742851/1‑67 (MQ=255) tCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGcc > 1:16003825/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg < 1:31035502/68‑1 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg > 1:257949/1‑68 (MQ=255) aTAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACg > 1:27849159/1‑68 (MQ=255) aaCGAAGGCGAGAGCACTATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:13208620/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc > 1:18157821/1‑68 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:28165368/68‑1 (MQ=255) aaCGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGc < 1:11600509/68‑1 (MQ=255) aCGAAGGCGAGAGCACCATCACCAACGGAGGCCCCGGCACCCAGATTAATCGACAACCCGCCACGGCa > 1:11500595/1‑68 (MQ=14) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa < 1:9495523/68‑1 (MQ=255) cGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa < 1:24628388/68‑1 (MQ=255) gAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCCCCCAGATTAATGGTGATGACGCCACGGCaa > 1:22310557/1‑67 (MQ=255) gAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCaa > 1:15849677/1‑67 (MQ=255) ggCGAGAGCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGCCGCCACGGCAaaca > 1:24928417/1‑67 (MQ=255) ggtccATCACAAACCGTGTCACCGGCACACAGATTAATGGTGATGACGCCACGGCAAACAACAACgg < 1:18904213/64‑1 (MQ=11) gCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACgg < 1:32413105/67‑1 (MQ=255) gCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACg < 1:34493021/66‑1 (MQ=255) gCACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGc > 1:29509007/1‑68 (MQ=255) cACCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCa > 1:10346723/1‑68 (MQ=255) aCCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCaa > 1:26662648/1‑68 (MQ=255) aCCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCaa > 1:10792594/1‑68 (MQ=255) aCCATCACCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCaa > 1:4261357/1‑68 (MQ=255) aCCAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAacca > 1:9797435/1‑67 (MQ=40) cAACGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCg > 1:3345544/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:23726647/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:17025012/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:100085/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:15501496/1‑68 (MQ=40) aCGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:25519923/1‑68 (MQ=40) cGGTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtt > 1:19619296/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACgg > 1:16770640/1‑40 (MQ=255) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGtcg > 1:6232036/1‑65 (MQ=255) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTg > 1:10500705/1‑67 (MQ=40) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAAAAACAGGGGAAAAACCACGGTTGa > 1:29831203/1‑68 (MQ=14) ggTGGCACCGGCACCCAGATTAATGGTGATGACGCCACCGCAAAAAACACGGGAAAAACCACTGTTGa > 1:20134806/1‑68 (MQ=14) gTGGCACCGGCACCCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAACCCACCGTAGAc > 1:19707376/1‑68 (MQ=255) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACgg < 1:29239097/68‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:22664320/67‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:12407100/67‑1 (MQ=40) ggcaccggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACg < 1:30455831/67‑1 (MQ=40) gcaccggcaccCAGATTAATGGTGATGACGCCACGGCTAATAACAGGGGCAAAACCACTGTTGATgga > 1:20661460/1‑67 (MQ=14) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCaa > 1:2859064/1‑68 (MQ=40) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCaa > 1:27303263/1‑68 (MQ=40) accggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCa < 1:9239182/67‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg > 1:6899085/1‑68 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:20410897/68‑1 (MQ=40) cggcaccCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:17770497/68‑1 (MQ=40) accCAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGAtt < 1:14832640/67‑1 (MQ=40) cccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAgg < 1:19276384/63‑1 (MQ=39) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:1475538/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTcc > 1:31315607/1‑67 (MQ=37) ccAGATTAATGGTGATGACGCCACGGCAAACAACAACGGCAAAACCACCGTTGACGGCAAGGATTCCa < 1:14377778/68‑1 (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: ‑ |