Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | USA300TCH1516_ALE | 2,504,894 | C→T | 17.1% | intergenic (+198/+206) | USA300HOU_RS12890 → / ← gltT | hypothetical protein/Proton/sodium‑glutamate symport protein |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | USA300TCH1516_ALE | 2,504,894 | 0 | C | T | 17.1% | 78.1 / 8.0 | 35 | intergenic (+198/+206) | USA300HOU_RS12890/gltT | hypothetical protein/Proton/sodium‑glutamate symport protein |
Reads supporting (aligned to +/- strand): ref base C (15/14); new base T (4/2); total (19/16) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 6.66e-01 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.60e-01 |
GTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGC > USA300TCH1516_ALE/2504755‑2505028 | gTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTcc > 1:85352/1‑141 (MQ=255) tAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCg > 2:19629/1‑141 (MQ=255) tCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGACTAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTgc < 1:37636/141‑1 (MQ=255) tCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTgc < 1:6191/141‑1 (MQ=255) cATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgcatg < 1:61588/141‑1 (MQ=255) ttttACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCgcatgca < 2:42254/141‑1 (MQ=255) ttACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACATGAGCTCCCTGAGCGCCGGTTCGCCTGCGCTTTAGCGCATGCATa < 2:76239/141‑1 (MQ=37) gctTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGcccc > 1:81623/1‑141 (MQ=255) ttttATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTCCGGTTCGCCTGCGCTGTAGCGCATGCCTAAAAGACCCTaa > 2:59255/1‑141 (MQ=255) tataTTTGAAATACTTTAGTAGTTAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTaacaa < 1:105886/141‑1 (MQ=255) tatTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAAcc < 2:116403/141‑1 (MQ=255) cTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTa > 1:48897/1‑141 (MQ=255) ttCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACg > 1:21334/1‑141 (MQ=255) cATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCCCCGGTTTGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCt > 1:26162/1‑141 (MQ=255) tAGCTCCACTTGCCGTGCTCCTGCGCTTTGCGCCTGCAGAAAATCCCCTAACAACCTAAGGTCACTGCGCGCCGGTTTTCCTGCGCGTTAGCGCAGGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTGGc > 1:90255/1‑141 (MQ=17) aGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGcc > 1:17954/1‑141 (MQ=255) cTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTg < 2:21334/141‑1 (MQ=255) cTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTg > 2:79167/1‑141 (MQ=255) tCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTgc > 1:49230/1‑141 (MQ=255) cTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCta < 2:75926/141‑2 (MQ=255) tGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTa > 2:123546/1‑141 (MQ=255) ccGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAgc > 1:37509/1‑141 (MQ=255) cTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAGCAACCTGAGGTCACTACGCTTCAGATCGCCTGCGCTTTAGCgcatgcat > 2:67703/1‑141 (MQ=255) tttGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGt < 1:133465/141‑1 (MQ=255) tGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCAGGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTcc > 2:100126/1‑141 (MQ=255) catAAACGCCCCTCACATGCTGAGGTCACTCCGCTCCGGGTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTaacaac < 2:132848/141‑1 (MQ=14) atAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAAcc < 1:93402/141‑1 (MQ=255) tAAAAGTCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTACCTAACAACCt > 1:22321/1‑141 (MQ=11) aaaGTCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAACCTGa > 1:44059/1‑141 (MQ=255) aaaGTCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTAGCCTGCGCTTTAGCGCATGCATAAAAGTACCTaacgactagc > 2:75242/1‑137 (MQ=11) aaGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATa > 2:41755/1‑60 (MQ=255) aacCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAACCTGAGGTCACTACGCt > 2:100577/1‑141 (MQ=255) gtgaCTGCGCCCCCGTTCGCCTTCGCTTTAGCGCATGCATAAAAGCCCCTCACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAACTTGAGGTCACTACGCTTCCGTTCg < 2:26162/138‑1 (MQ=17) gTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCg < 1:98179/141‑1 (MQ=11) cACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGcc < 1:78130/141‑1 (MQ=11) tGCGCTCCGCTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTgc < 2:81623/141‑1 (MQ=255) | GTAAGTTGATTTCCAATTTGGAATCATTTTACTGCTGCTTTTTATATTTGAAATACTTTCATATTGAATAGCTCCACTTGCCGTTCGCCTGCGCTTTGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTGCGCTCCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGCCCCTAACAACCTGAGGTCACTACGCTTCGGTTCGCCTGCGCTTTAGCGCATGCATAAAAGTCCCTAACAACCTGAGGTCACTACGCTTCCGTTCGCCTGC > USA300TCH1516_ALE/2504755‑2505028 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |