Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 5,256,864 | T→A | 10.0% | intergenic (+16/+29) | PP_5703 → / ← PP_4634 | type III effector protein HopJ/alpha/beta family hydrolase |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 5,256,864 | 0 | T | A | 10.0% | 130.9 / 5.6 | 58 | intergenic (+16/+29) | PP_5703/PP_4634 | type III effector protein HopJ/alpha/beta family hydrolase |
Reads supporting (aligned to +/- strand): ref base T (25/24); new base A (4/2); total (31/27) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 6.72e-01 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.06e-01 |
CCTTCGGCGAGCACTACCGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGAAAAACGCGAAATGGCCAA > NC_002947/5256718‑5257008 | ccTTCGGCGAGCACTACCGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCttt < 3:338790/149‑1 (MQ=255) gttCGGCGAGCACTAGCGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGGACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTg < 4:235611/148‑1 (MQ=255) gCGAGCACTACCGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGcc > 7:89459/1‑149 (MQ=255) gCGAGCACTACCGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCAAAGCGGcc > 5:66705/1‑149 (MQ=255) gCACTACCGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCAAAGCGGcc‑ccgg < 8:256816/149‑3 (MQ=255) cACTACCGTGATGTGTTCGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGCCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTCGAGATTGCGGGGGCCGCTTTGCGGCC‑CCACg < 6:236344/149‑1 (MQ=255) ccGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCAAAGCGGcc‑ccggcaat < 6:66705/147‑7 (MQ=255) ttGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGc > 5:188192/1‑125 (MQ=255) ttGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGc < 6:188192/125‑1 (MQ=255) gCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGCTCCTCCGCCCACCCTc > 1:284452/1‑148 (MQ=255) gCCACGCCTGAGGGTAGCGACCATGGCAACATCAGTGCACTGAGCAAACACGGTCTGGCGGGCGTGAAGTATGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTTGGGGC‑GCACGTTGCTGAGccccggcga > 8:283964/1‑142 (MQ=255) ccACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCa > 1:341250/1‑148 (MQ=255) cACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACCCTCCAGCGCCCCCCCTCaa > 1:359125/1‑148 (MQ=255) gCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCa < 5:85999/149‑1 (MQ=255) ccTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCat < 7:276540/149‑1 (MQ=255) ggTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGt < 2:341250/149‑1 (MQ=255) gCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCa < 1:159377/149‑1 (MQ=255) cGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATcc < 8:107311/136‑1 (MQ=255) cGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATcc > 7:107311/1‑136 (MQ=255) cATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGc > 4:336683/1‑101 (MQ=255) cATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGc < 3:336683/101‑1 (MQ=255) ggCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGa < 4:336930/108‑1 (MQ=255) ggCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGa > 3:336930/1‑108 (MQ=255) cAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGc > 7:56532/1‑149 (MQ=255) aaCATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGc > 8:6409/1‑95 (MQ=255) aaCATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGc < 7:6409/95‑1 (MQ=255) ccGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCTCTTTGCGGCC‑ACACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTc > 1:238625/1‑147 (MQ=255) cGTGCACTCATCACACACGGGCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCa < 2:286814/148‑1 (MQ=255) gTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGc < 8:56532/149‑1 (MQ=255) aCTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTcc > 6:153046/1‑149 (MQ=255) tGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTcccc > 3:296156/1‑149 (MQ=255) aTCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTg > 2:288544/1‑149 (MQ=255) tCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGt > 1:155436/1‑118 (MQ=255) aaaCACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCg > 6:109186/1‑149 (MQ=255) aaaCACGGTCTGGCGCGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGTGGCCGCGTTGAGGAC‑CCACGATCCTACGCCCCCCCTCAATCAATGATGGTGCCACGCCCCCCGCCTGACAGACTCCCCGGCCg > 4:250967/1‑149 (MQ=255) aaCACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCg > 5:112112/1‑148 (MQ=255) acacGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATACAGCGCCCCACCGCAATCCAAGATTGTGCCAGGCCCCCCGCCATCCAGCCAACCCTGCCGc > 8:150541/1‑148 (MQ=255) acGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCCCAAGGCTTGAGATTGCCGGGGCCGCATTGCGGCC‑CCCCGAGCCAGCCCCCACCCACAAACCAAGTACGTGGCAGCCCCCCCCCCATGCACCCGACCCAGCCGcccc > 4:79733/1‑146 (MQ=255) tGGCGGGAGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGTCCCCTTAGCGGCC‑CAACGATACTGCGCCCAACCTAAATACAAGCTCTTGCCAGGCCCCCCCCCTTCCACCCTCCCATCACGCAACCCCtc > 4:313559/1‑147 (MQ=255) gggcgTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAgg < 1:133701/149‑1 (MQ=255) gggcgTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAgg < 6:48060/149‑1 (MQ=255) aGTTTGCTGCGCAGCGGCTTGGGTGCAAGGCTTCATCTGGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGc < 2:284452/149‑1 (MQ=255) ctgcGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAg < 1:288544/148‑1 (MQ=255) ctgcGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAg < 8:15688/148‑1 (MQ=255) tgcGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCCCCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGc > 7:69003/1‑149 (MQ=255) gCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTcgc < 7:150541/149‑1 (MQ=255) cGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCGTTGGGGCC‑CCACGATCCTGCGCCCCCCCTCCATCCATGATGGTGCCAGGCCCCCCGCCGTGCCGCCGCCCCGGCCGCCACCCCGGCAAGGCCCCCGGCCACCGGCGTTggcg > 4:146473/1‑148 (MQ=255) gcgcgcAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCCGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCg > 3:51697/1‑149 (MQ=255) cAAGGCTTGAGATTGCCGTGGCCGCTTTGCGGCC‑CCACGATCCTGCTCCCACCCTCAATCCATTATGGTGACAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGTCCACAGGCTTTCGCGAAACCGGTCAt < 2:238625/149‑1 (MQ=255) gCTTGAGATTGCCGGGGCCGCTTTGCGGCCGCCACGATCATGCGCCCCCCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTGCCAGCCGCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACCGGCTTTCGGGAAACCGGTCATgg > 1:35469/1‑148 (MQ=255) gCTTGAGATTGCCGGGCCCGCGTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGaa < 7:283964/149‑1 (MQ=255) cagaTTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAAc < 8:337095/97‑1 (MQ=255) tcgtggggCCGCAAAGCGGCC‑CCGCGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCACGGCCACCGGCCACAGGCGTTCGCGAAACCGGTCAt > 5:264054/5‑136 (MQ=255) cgtggggCCGCAAAGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGAAAAACGCGaaa > 5:389176/4‑149 (MQ=255) ccGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGt > 3:117041/1‑54 (MQ=255) ccGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGt < 4:117041/54‑1 (MQ=255) ccGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGAAAAACGCGaaa < 2:359125/148‑1 (MQ=255) gCCGCTTTGCGTCC‑CCACGATCCTGCGCCCACCCTCAAAACATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGAAAAACGAGAAATGGCCa < 3:313559/149‑1 (MQ=255) ccGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACAGCAAGCCCCCCGGCCACACGCTTTCGCGAAACCCGGCATGGAAAAACGCCAAATGGGCaa > 8:111137/1‑149 (MQ=255) tttGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGa > 6:111203/1‑127 (MQ=255) tttGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGa < 5:111203/127‑1 (MQ=255) | CCTTCGGCGAGCACTACCGTGATGTGTTGGCCACGCCTGAGGGTAGCGACCATGGCAACATCCGTGCACTGATCAAACACGGTCTGGCGGGCGTGAAGTTTGCTGCGCAGCCGCTTGCGCGCAAGGCTTGAGATTGCCGGGGCCGCTTTGCGGCC‑CCACGATCCTGCGCCCACCCTCAATCCATGATGGTGCCAGGCCCCCCGCCTTCCAGCCTCCCCTGCCGCAACCACTGCAAGGCCACCGGCCACAGGCTTTCGCGAAACCGGTCATGGAAAAACGCGAAATGGCCAA > NC_002947/5256718‑5257008 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |