| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP009273 | 468,288 | A→T | 35.6% | K79* (AAG→TAG) | glnK → | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP009273 | 468,288 | 0 | A | T | 35.6% | 54.8 / 40.8 | 49 | K79* (AAG→TAG) | glnK | nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB |
| Reads supporting (aligned to +/- strand): ref base A (20/11); new base T (12/5); total (32/17) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 7.57e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
CGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGAAAAATGAAGATAG > CP009273/468140‑468431 | cGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTa < 1:39573/149‑1 (MQ=255) cGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGTTGACCAACTCGATGAAGTGGTCGGTATCGTAAGTAAggggg > 1:842925/1‑149 (MQ=255) cGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAggcgg > 1:1232768/1‑149 (MQ=255) aaaGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATCTCGTCAGTAAGGCGGCTTacac > 1:348294/1‑149 (MQ=255) aaGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACAAACTATATAAAGGAATCGATCTCGCACGAAAGGCGGCt > 2:101760/1‑143 (MQ=255) tttCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATAGATATCGTCAGTAAGGCGGCTTACGACGGaa > 1:458491/1‑149 (MQ=255) ttCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACACGATCAAGTGATCTATATCGTCAGTAAGGCGGCTTACACCGGaaa > 1:884016/1‑149 (MQ=255) cAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGa > 1:99491/1‑149 (MQ=255) tGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCt > 1:210480/1‑149 (MQ=255) cTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGAGGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATGGGCGACGGCAAAATCTTCGTCGc > 1:332824/1‑149 (MQ=255) ccGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTtcgtcg > 2:596777/1‑143 (MQ=255) ccGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCCACGGCAAAATCTTCGTCGCTGAAt > 1:767813/1‑149 (MQ=255) ggggggCGGAATACAGGGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGACGTGATCGATATCGTCATTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCt < 2:934877/143‑1 (MQ=255) gggggCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGc > 1:218527/1‑149 (MQ=255) ggggCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCa < 1:457203/149‑1 (MQ=255) cGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAAcgc < 1:575222/149‑1 (MQ=255) cGGAATACAGCGTCAATTCCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAAcgc < 1:878021/149‑1 (MQ=255) aaTACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCGAAATCTTCGTCGCTGAATTGcca > 2:431213/1‑141 (MQ=255) aGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGt > 2:475709/1‑143 (MQ=255) gCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCattcgt > 1:443815/1‑149 (MQ=255) cGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATCTCGTCAGTAAGGCGGCTTACACCGGAAAAAATGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCa > 2:166063/1‑143 (MQ=255) cAATTGCCTGCCAAAAGTAAAAATTGATGTGGCGAGTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCattcgtattc < 1:1202858/149‑1 (MQ=255) tttCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAGGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTGGTCGCTGAATAGCAACGCGGCattcgta > 2:759915/1‑143 (MQ=255) tCCTGCCAAAAGTAAAAATTGATGTGGCGCTTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCCACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCattcgtatt < 2:415692/143‑1 (MQ=255) ccTGGCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCattcgtattc < 2:328596/143‑1 (MQ=255) tAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCcgac > 1:829220/1‑149 (MQ=255) tAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCcgac > 1:279931/1‑149 (MQ=255) aTGGGGCGATCGCTGATGACCAACTCGATGAAGTGATTGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTAGTCGTACCGGCGAAGCCGACGAAgcggcg < 1:848823/149‑1 (MQ=255) gtgGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAgc > 2:959602/1‑143 (MQ=255) gtgGCCATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCt < 1:804237/149‑1 (MQ=255) ggggCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAgc < 2:232421/141‑1 (MQ=255) tgGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTg > 1:864015/1‑149 (MQ=255) gCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGGGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAACCGACGAAACGGCGCGGTa > 1:963216/1‑149 (MQ=255) gATTGGTGATGACCCACGCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAAt < 1:802398/149‑1 (MQ=255) gATGGCTGATGACCAACGCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAAt < 1:406638/149‑1 (MQ=255) aTTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCt > 2:1141720/1‑143 (MQ=255) aTTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCt > 2:448269/1‑143 (MQ=255) gCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTa > 2:1074109/1‑143 (MQ=255) gCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATCGCAACGCGGCATTCGTATTCGTACCGGCGAAGCCGACGAAGGGGCGCTGTa > 2:1074211/1‑143 (MQ=255) cTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTg < 1:488923/149‑1 (MQ=255) tgaCCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGcac > 1:1040199/1‑149 (MQ=255) cTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCAGGcaca > 2:820659/1‑143 (MQ=255) cTCGACGAAGCGAGCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCaa < 1:733736/149‑1 (MQ=255) aaGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAAc > 1:1141125/1‑149 (MQ=255) aTCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGaaaa > 1:430500/1‑149 (MQ=255) aTCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGaaaa > 1:1293481/1‑149 (MQ=255) tcgtaatCGTCAGTTAGGCGGCTTACGCCGGAAAAATTGGCGACGGCAAAATCTTCGCCGCTGCATTGCAACGCGTCATTCGTATTCGTACCGGCGAGGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAAc < 2:85680/138‑1 (MQ=255) gnctCGGCAGTGAGGCGCCTTACACCGCAAAAATTCGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGGCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGaa < 2:933210/140‑1 (MQ=255) tCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGAAAAAAGAAGATAg > 1:1173277/1‑149 (MQ=255) cAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGAAAAATGaa < 2:920491/143‑1 (MQ=255) | CGTCACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGAAAAATGAAGATAG > CP009273/468140‑468431 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |