| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 1,460,527 | C→A | 5.6% | pseudogene (879/2513 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 | 1,460,527 | 0 | C | A | 5.6% | 2762.3 / 8.5 | 882 | pseudogene (879/2513 nt) | ydbA | pseudogene, autotransporter homolog; interrupted by IS2 and IS30 |
| Reads supporting (aligned to +/- strand): ref base C (519/277); new base A (74/2); total (602/280) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 4.00e-11 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Only 100 of 898 total aligned reads displayed.
ACAGCGCGACGGTGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCC > CP009273/1460460‑1460594 | aCAGCGCGACGGTGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATc > 1:41475847/1‑68 (MQ=255)aCAGCGCGACGGTGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATc > 1:28507118/1‑68 (MQ=255) gcgACGGGGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGAc < 1:19297163/66‑1 (MQ=255) gACGGTGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGt < 1:22566601/67‑1 (MQ=255) gACGGTGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTg < 1:33518059/68‑1 (MQ=255) cGGTGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGa < 1:13844402/67‑1 (MQ=255) ggATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAgg < 1:46410092/68‑1 (MQ=255) aTAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGc < 1:50961129/67‑1 (MQ=255) aTAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATCGGTATCCAGATAGACGGTCACAAGGcc > 1:24135906/1‑68 (MQ=11) aaCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCAt < 1:19669769/68‑1 (MQ=255) aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGGTAGACGGGGACAAGGccctg > 1:40522203/1‑65 (MQ=11) aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATc > 1:7027746/1‑68 (MQ=255) aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATc > 1:12190517/1‑68 (MQ=255) aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATc > 1:11830134/1‑68 (MQ=255) aCAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGGGACAAGGCCATc > 1:34289028/1‑68 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACCAGGCCATCg > 1:22879628/1‑67 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCg > 1:17279587/1‑67 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCg > 1:26699293/1‑67 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCg > 1:23231835/1‑67 (MQ=255) aaGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGt < 1:38442266/68‑1 (MQ=255) aGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGGTCGACGGTGACAAGGCCATCGTc > 1:10912549/1‑68 (MQ=255) ggCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCaa > 1:35194881/1‑68 (MQ=255) gCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCaa < 1:20844339/67‑1 (MQ=255) gCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATAGACGGTGACAAGGCCATCGTCAAt > 1:10583976/1‑68 (MQ=255) aCCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGGTAGACGGTGACAAGGCCGTCGTaaaaa > 1:26205801/1‑65 (MQ=14) aTGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGa > 1:24549442/1‑68 (MQ=255) tGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTGAATAACGaa > 1:15459195/1‑68 (MQ=255) aCCGTCACCGATCCGGAGTCCATGGGTATCCAGCTCGACGGTGACAAGGCCCTCGTGAATAACGAAg > 1:16693349/1‑67 (MQ=17) aCCGTCACCGATCCGGAGTCCATGGGTATCCAGCTCGACGGTGACAAGGCCATCGTCAATAACGAAg > 1:47153898/1‑67 (MQ=255) ccGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAgg < 1:9012630/67‑1 (MQ=255) ccGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGc > 1:46094661/1‑68 (MQ=255) cGTCACCGATCCGGAGTCCATGGGTATCCAGATGGACGGTGACAAGGCCATCGTCAATAACGAAGGCg > 1:31222519/1‑68 (MQ=255) cGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCg > 1:25586426/1‑68 (MQ=255) cGTCACCGATCCGGAGTCCATGGGTATCCAGATAGACGGTGACAAGGCCATCGTCAATAACGAAGGCg > 1:28790720/1‑68 (MQ=255) gTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACTAGGCCATCGTCAATAACGAAGGCga < 1:48237417/68‑1 (MQ=255) cACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCgaga < 1:39977710/68‑1 (MQ=255) aCCGATCCGGAGTCCATGGGTTTACAGATCTACGCTGAAAAGGCCAGCGTCAAAAACGAAGGCgagc > 1:30549804/1‑66 (MQ=17) ccGATCCGGAGTCCATGGGTATCCAGATCGACGGTGCCAAGGCCATCGTCAATAACGAAGGCGagag > 1:25784325/1‑67 (MQ=255) cGATCCGGAGTCTATGGGTATCCAGATAGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGc > 1:37256807/1‑67 (MQ=255) cGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCa < 1:45306754/68‑1 (MQ=255) gATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCAc < 1:42438195/68‑1 (MQ=255) tCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCAcc < 1:33045117/67‑1 (MQ=255) ccGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCAt < 1:21797678/68‑1 (MQ=255) ggAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCa < 1:16294416/68‑1 (MQ=255) ggAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCa < 1:4090187/68‑1 (MQ=255) ggAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCa < 1:9463427/68‑1 (MQ=255) ggAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCa < 1:5662391/68‑1 (MQ=255) ggAGTCCATGGGTAACCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCa < 1:13419245/68‑1 (MQ=255) gTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACTATCACCa > 1:48609582/1‑68 (MQ=255) tCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCAct < 1:7608248/60‑2 (MQ=255) tCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCa > 1:6109494/1‑67 (MQ=255) tCCATGGGTATCCAGATAGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACTATc > 1:3970245/1‑63 (MQ=255) cATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACg < 1:32658509/68‑1 (MQ=255) cATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACg < 1:42885253/68‑1 (MQ=255) cATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACg < 1:17758494/68‑1 (MQ=255) cATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACg < 1:12819566/68‑1 (MQ=255) cATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACg < 1:47734689/68‑1 (MQ=255) cATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACg < 1:37722783/68‑1 (MQ=255) tGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGt > 1:49963492/1‑68 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACGATCACCAATggcg > 1:35994921/1‑65 (MQ=11) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCACCGGTg > 1:14217292/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCACCGGTg > 1:1996965/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACgggg > 1:1835612/1‑65 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:36937833/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:28181283/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:44929730/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:45826509/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:7957547/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:10011027/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:35656721/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTg > 1:36334279/1‑67 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAAAgggg > 1:41931715/1‑65 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAAAggag > 1:50268549/1‑65 (MQ=255) ggTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAATgggg > 1:44022714/1‑65 (MQ=14) ggTATCCAGATAGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACTATc > 1:5167550/1‑57 (MQ=11) tCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcacc < 1:27445345/68‑1 (MQ=255) tCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcacc < 1:8482482/68‑1 (MQ=255) ccAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccg > 1:24809590/1‑68 (MQ=255) ccAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccg > 1:29939987/1‑68 (MQ=255) ccAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATAAAAAACGGTtgcaccg > 1:38808839/1‑68 (MQ=18) cAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccg > 1:27692082/1‑67 (MQ=255) cAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccg > 1:42184842/1‑67 (MQ=255) aGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACGATCACCAACGGGggcaccggc > 1:14962486/1‑68 (MQ=255) aGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:29073188/1‑68 (MQ=255) aGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:29467772/1‑68 (MQ=255) aGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:6707536/1‑68 (MQ=255) aGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:49500037/1‑68 (MQ=255) aGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAAAGGGggcaccggc > 1:39270377/1‑68 (MQ=255) aGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAAAGGCggcaccggc > 1:347426/1‑68 (MQ=14) gATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:49038151/1‑67 (MQ=255) gATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:44430580/1‑67 (MQ=255) gATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:31578082/1‑67 (MQ=255) gATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc > 1:18931624/1‑67 (MQ=255) gATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAACGGAggcaccggc > 1:20536738/1‑67 (MQ=255) tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggcac > 1:25210767/1‑67 (MQ=255) tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggca < 1:11302210/66‑1 (MQ=255) tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc < 1:43495885/65‑1 (MQ=255) tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTggcaccggc < 1:3227269/65‑1 (MQ=255) tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAAGGGAggcaccggcac > 1:46787768/1‑67 (MQ=14) tCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACAATCACCAACGGAggcaccggcac > 1:36623640/1‑67 (MQ=255) | ACAGCGCGACGGTGGATAACAAGGGCACCATGACCGTCACCGATCCGGAGTCCATGGGTATCCAGATCGACGGTGACAAGGCCATCGTCAATAACGAAGGCGAGAGCACCATCACCAACGGTGGCACCGGCACCC > CP009273/1460460‑1460594 |
| 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: ‑ |