| Predicted mutation | ||||||
|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | annotation | gene | description |
| RA | NC_000913 | 2,012,563 | (G)6→7 | pseudogene (62/279 nt) | intG → | putative defective phage integrase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | NC_000913 | 2,012,557 | 1 | . | G | 93.9% | 163.3 / 3.2 | 50 | pseudogene (56/279 nt) | intG | putative defective phage integrase |
| Reads supporting (aligned to +/- strand): ref base . (2/1); new base G (22/24); total (24/26) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 6.09e-01 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.36e-01 | |||||||||||
AAAAATCGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑GG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAA > NC_000913/2012420‑2012686 | aaaaaTCGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg < 1:87137/140‑1 (MQ=255) aaaTCGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg‑gg < 1:564970/140‑1 (MQ=255) cGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg‑gg‑g‑ggt > 2:409248/1‑138 (MQ=255) cGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg‑gg‑g‑ggt > 1:70901/1‑138 (MQ=255) cGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg‑gg > 2:366622/1‑136 (MQ=255) cGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg‑gg < 1:366622/136‑1 (MQ=255) cGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGATGAAGTGGCAAATGAGGCGCTGTGATGTTCA‑gg‑gg‑g‑ggt > 2:198144/1‑138 (MQ=255) tCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg‑gg‑g‑ggttat < 1:418125/140‑6 (MQ=255) tCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑gg‑gg‑g‑ggttat < 2:436313/140‑6 (MQ=255) aTCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGtata < 2:733465/140‑1 (MQ=255) tCGCCCGGAATATGAATAAAAACATCAACAATGCTGAAATTATCCAGATGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATAc < 2:330036/140‑1 (MQ=255) cGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACg > 1:646184/1‑140 (MQ=255) cccGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGTCGCTCTGATGTGCAGGG‑GG‑G‑GTTATCGCGTATACGGa > 1:330036/1‑140 (MQ=255) tatGAATAAAAACATCAACAAACATTAAATTGTCCCGAGCTTACTGTTTCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGa < 2:218037/140‑1 (MQ=255) aaTAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGCTCA‑GG‑GGAG‑GTGATTGCGTATACGGATCGTGGATGGc > 1:292245/1‑140 (MQ=255) aaaaCATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGaa < 2:70901/140‑1 (MQ=255) aaaaCATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGaa > 1:142565/1‑140 (MQ=255) aaaaCATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGaa > 1:623598/1‑140 (MQ=255) aTCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGt < 1:449845/140‑1 (MQ=255) aTCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGt < 1:522722/140‑1 (MQ=255) aTCAACAAAGATTAAATTATCCAGACGTTGCTGTTGCCTCTGTGGTCGTAACAACATCCGACGTGGTGATGCGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGt < 1:358123/140‑1 (MQ=255) tCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGtt < 1:409248/140‑1 (MQ=255) tCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGt > 2:608789/1‑139 (MQ=255) tCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGt < 1:608789/139‑1 (MQ=255) aTTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑GG‑GGTG‑GTTATCGCGTAAACGGATCGTGGAGGGCAAAAAACGTTCAGGATCAg > 2:226628/1‑140 (MQ=255) gagGTTACTGTTGCGTACGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTaa < 2:337501/140‑1 (MQ=255) agGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTaaa > 1:658304/1‑140 (MQ=255) agGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTaaa > 2:129005/1‑140 (MQ=255) aCTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGa > 1:406473/1‑140 (MQ=255) cGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATtgag > 1:599706/1‑140 (MQ=255) tCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATtgagtg > 1:403247/1‑140 (MQ=255) gtgGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAATCGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTgagtgagt < 1:129005/140‑1 (MQ=255) gtgGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTgagtgagt > 1:140965/1‑140 (MQ=255) ggTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGttt > 2:659144/1‑140 (MQ=255) gTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGccc < 2:658304/140‑1 (MQ=255) tAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGcccc > 2:585205/1‑140 (MQ=255) tAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGATATCCATTTTATACGAGAAATCGAGTGAGTTTGcccc > 1:304825/1‑140 (MQ=255) caTCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCccatccat > 1:79538/1‑140 (MQ=255) caTCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCccatccat > 1:58216/1‑140 (MQ=255) tCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCTTTTAAAAACAGAAATTGAGTGAGTTTGCCCCATCCATGc > 2:307776/1‑140 (MQ=255) tCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGc < 2:577014/140‑1 (MQ=255) tCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATAAGGTATCCGTTTGAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGc > 2:217106/1‑140 (MQ=255) aCGTGGTGATGTGTCAAATGAGTCGCTCTTATGTTCATGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCa < 1:226628/140‑1 (MQ=255) aCGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCa > 1:387258/1‑140 (MQ=255) tgATGTGTCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGt < 2:623598/140‑1 (MQ=255) tgtCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGAt < 2:140965/140‑1 (MQ=255) tgtCAAATGAGACGCTCTGATGTTCA‑GG‑GG‑GAGTTATCGAGTATACGGCTCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGAt < 2:304825/140‑1 (MQ=255) tCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCAcgcg > 1:714880/1‑131 (MQ=255) tCAAATGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCAcgcg < 2:714880/131‑1 (MQ=255) cAAATGAGGCGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATTCATGCCCCACGCGGTGAGATCgg < 2:403247/140‑1 (MQ=255) cAAATGAGACGCTCTCATGTTCA‑GGAGG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCgg < 1:307776/140‑1 (MQ=255) aaTGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGAt > 2:180033/1‑140 (MQ=255) aTGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATg < 1:53127/140‑1 (MQ=255) aTGAGACGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGAATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATg < 2:292245/140‑1 (MQ=255) aCGCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAAtt > 2:9964/1‑140 (MQ=255) gCTCTGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTaa < 2:406473/140‑1 (MQ=255) tctGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTaaca < 2:58216/140‑1 (MQ=255) ctGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTaacaa < 1:553017/140‑1 (MQ=255) ctGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTaacaa < 1:659144/140‑1 (MQ=255) ctGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTaacaa < 2:387258/140‑1 (MQ=255) ctGATGTTCAGGG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTaacaa < 1:180033/140‑1 (MQ=255) | AAAAATCGCTCATATCCATCGCCCGGAATATGAATAAAAACATCAACAAAGATTAAATTATCCAGAGGTTACTGTTGCGTCTGTGGTCGTAACAACATCCGACGTGGTGATGTGTCAAATGAGACGCTCTGATGTTCA‑GG‑GG‑G‑GTTATCGCGTATACGGATCGTGGATGGCAGAAAACGTTCAGGATCAGGTATCCATTTTAAACCAGAAATTGAGTGAGTTTGCCCCATCCATGCCCCACGCGGTGAGATCGGATGTAATTAACAA > NC_000913/2012420‑2012686 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |