Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | NC_002947 | 1,311,739 | T→C | 12.5% | intergenic (‑207/+71) | PP_1144 ← / ← rapA | membrane protein/RNA polymerase‑associated protein RapA |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | NC_002947 | 1,311,739 | 0 | T | C | 12.5% | 119.8 / 7.0 | 53 | intergenic (‑207/+71) | PP_1144/rapA | membrane protein/RNA polymerase‑associated protein RapA |
Reads supporting (aligned to +/- strand): ref base T (12/30); new base C (3/3); total (20/33) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 3.60e-01 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GGCAGTATAGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCT > NC_002947/1311594‑1311879 | ggCAGTATAGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGc < 4:147090/148‑1 (MQ=255) gCAGTATAGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑TAATTTGGGGCCCTAATGCCTTCCTTTGGGAGCGGGCGAGACAGCGAAGCATACACTGCgg > 7:99536/1‑149 (MQ=255) gCAGTATAGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTAAAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCgg < 2:295784/149‑1 (MQ=255) gCAGTATAGGAAGGAGTACTTAAGACTTCCTGTCTAATGGCTGTATGATTTATACGATTTTGTTATAACTCCAATCGCAGTGTGGAAT‑AAATTTGGGGCCCTTATGCCTTCCTGTGTGTGCGGGCGAGCCCGCGAAGGATCCACTGCgg < 8:10494/149‑1 (MQ=255) cAGTATAGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAATAAAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCgg < 1:249053/149‑1 (MQ=255) ataGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGa < 6:207674/148‑1 (MQ=255) taGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGAt < 2:97359/148‑1 (MQ=255) aaggaGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACCGCAGTGGATGcttc < 2:83700/149‑4 (MQ=255) ggaGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCg < 8:268545/149‑1 (MQ=255) aGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGc > 6:61937/1‑149 (MQ=255) ttAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGGGGATGCCACCGGCTTTGc > 6:881/1‑149 (MQ=255) aaGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGGACCATCCAAAGCGGGGGCTGCCACCCGCGTTGCCg > 2:178650/1‑149 (MQ=255) cTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCg < 6:20931/145‑1 (MQ=255) cTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCg > 5:20931/1‑145 (MQ=255) tGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTcgcg > 5:267177/1‑149 (MQ=255) tGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCCCCCAGCCAACACAGCGGGGGGTGGCACCCGCGTTTGGGGTGTTggcg > 4:213414/1‑149 (MQ=255) aTGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGt < 3:213414/148‑1 (MQ=255) tGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGgt > 5:291258/1‑135 (MQ=255) tGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGgt < 6:291258/135‑1 (MQ=255) tGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCCCGCAGCCTACACAGCGGGGGGTGGCACCCGCgttggcggggttggcgggggggc > 6:181687/1‑144 (MQ=255) ggCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATACACAGCGGTGGGTGCCACCCGCGTTTGCGGTGTTGGCGGGCGTGcc > 4:66226/1‑149 (MQ=255) cTACGATGTGGTTATAACTCCAATCGCAGTGAGCAAT‑AAATTGGGCGCCCTAATGCCTTCCTGGGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAg < 7:45812/148‑1 (MQ=37) ggTTAAAACTCCAATCGCAGTGCGGAAT‑AAATTTGGGGCCCTAATCCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCggg < 5:181687/148‑1 (MQ=255) gTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGc < 6:310969/149‑1 (MQ=255) ttATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACCGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACaa < 8:63106/136‑1 (MQ=255) ttATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACCGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACaa > 7:63106/1‑136 (MQ=255) taACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTgc < 5:24775/149‑1 (MQ=255) taACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTgc < 6:258091/149‑1 (MQ=255) aaCTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTgcg > 5:316826/1‑149 (MQ=255) tCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCggg < 7:41322/139‑1 (MQ=255) tCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTgcgc > 5:161837/1‑147 (MQ=255) ccAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGGGGGAGCGGGCGCCCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGCTTCCCACAAGGGGCGCGGGGCCTGCGCTa < 1:178650/149‑1 (MQ=38) aaTCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTagcc < 6:267177/149‑1 (MQ=255) aTCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTagcca < 5:61937/149‑1 (MQ=255) cAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTagccagcc < 6:161837/148‑1 (MQ=255) aTTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAAt < 5:43227/149‑1 (MQ=255) ggggCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGc < 2:294721/148‑1 (MQ=255) gggggAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTagccagc < 1:38379/109‑1 (MQ=255) gggAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTtc < 3:66226/149‑1 (MQ=255) ggAGGGTGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGggcg < 3:301864/142‑1 (MQ=255) gAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTtctc < 3:67387/149‑1 (MQ=255) gCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCa < 7:9918/149‑1 (MQ=255) gggCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGc < 4:307127/149‑1 (MQ=255) ggCGAGCCCGCGAAGCATCCACAGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCa > 8:246383/1‑149 (MQ=255) gCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGc > 4:235489/1‑148 (MQ=255) cccGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCa < 8:26355/149‑1 (MQ=255) ggtggCATCCACCGCAGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCCGCCACCAGCACGCGAATGGCATCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGcc > 6:267429/5‑149 (MQ=38) cgAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTATCTAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGTCTTCTCCAGCATTGCCAGGcc < 1:45967/149‑1 (MQ=255) aGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATc > 2:214164/1‑149 (MQ=255) gCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCt > 2:55598/1‑149 (MQ=255) gCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAACCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCt > 7:223322/1‑149 (MQ=255) aTCCACCGCAGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGggcggc > 3:199263/1‑122 (MQ=255) aTCCACCGCAGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGggcggc < 4:199263/122‑1 (MQ=255) | GGCAGTATAGGAAGGAGTACTTAAGCCTTCCTGACTAATGGCACAATGATTTCTACGATTTGGTTATAACTCCAATCGCAGTGAGGAAT‑AAATTTGGGGCCCTAATGCCTTCCTGTGGGAGCGGGCGAGCCCGCGAAGCATCCACTGCGGTGGATGCCACCGGCTTTGCCGGTGTTCGCGGGCGTGCCCGC‑TCCCACAAGGGGCGCGGGGCCTGCGCTAGCCAGCCACCAGCACGCGAATGGCTTCCAGGCGCAGGGCGGCCTTCTCCAGCATTGCCAGGCCATCT > NC_002947/1311594‑1311879 |
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: ‑ |