| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,932,853 | T→C | 100% | I799V (ATT→GTT) | USA300HOU_RS09605 ← | hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,932,853 | 0 | T | C | 97.0% | 80.8 / ‑5.5 | 28 | I799V (ATT→GTT) | USA300HOU_RS09605 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base C (13/14); minor base A (0/1); total (13/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Frequency below/above cutoff threshold. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
CTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAATGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTA > USA300TCH1516_ALE/1932724‑1932978 | cTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAATCGTCGATTCGaa > 1:344347/1‑141 (MQ=255) aTAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACACAAGTCGATCCGAAGTGTCg < 2:199467/141‑1 (MQ=255) aCTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGcccc < 1:115533/141‑1 (MQ=255) aCTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCCCTATCTGTTTACGCCAAACGTCGATTCGAACTGTCGcccc < 1:290751/141‑1 (MQ=255) ctatTCATTTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAAc < 2:80436/140‑1 (MQ=255) atatTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAAc < 2:387245/141‑1 (MQ=255) atatTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAAc < 1:193432/141‑1 (MQ=255) cAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTCTATATATATCTCAATCTTCGATTCGAAGTGTCGCCCCTAAAACAGAAg > 1:205089/1‑141 (MQ=255) cAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGaaa > 2:302138/1‑140 (MQ=255) cAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAg > 1:227842/1‑141 (MQ=255) aTTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGACGTGTCGCCCCTAAAACAGAATCa > 2:233431/1‑141 (MQ=255) gTTTGCCGAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCatat < 1:242339/141‑1 (MQ=255) tttGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCAtata < 2:91730/141‑1 (MQ=255) tGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTATTCATAAATATAATTAGCAATCTCTATATGTATTTCAACAACGTCGATTCGAAGTGTGGCACCTAAAACAGAAACATATAAt > 2:8097/1‑141 (MQ=255) gCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATc < 1:365386/141‑1 (MQ=255) gCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATc < 1:328927/141‑1 (MQ=255) ccTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATCAATATAATTAGCAATCTCCATATGTATTTCCCAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAATCATATAATCt > 2:119180/1‑141 (MQ=255) tctcATTAAAATATGAGTATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACtatata < 2:147683/141‑1 (MQ=255) tctcATTAAAATATGAGTATATACCAGTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACtatata < 2:147680/141‑1 (MQ=255) aaTATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCAtt > 2:111161/1‑141 (MQ=255) tATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTtaata > 1:4016/1‑141 (MQ=255) aaTATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTTACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCa < 1:31172/141‑1 (MQ=255) cttcATAAATATAATTAGCAATCTCTATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAAttt > 1:137284/1‑141 (MQ=255) ttcATAAATATAATTAGCAAGCTCTATAGGTATTTCACAAACGTCGATTCGAAGAGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAAtttt > 1:256431/1‑141 (MQ=255) aaTCTCTATATGTATTTCACAAACGTCGATTCGATGTGTCTTCCCTAAATTAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTTATATAATTTTATTAAACTAATAATTTTAGTTGGATATGTTTTGat > 2:94006/1‑140 (MQ=255) tctATATGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGaataat > 1:65671/1‑141 (MQ=255) tataTGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAAttt < 1:381165/141‑1 (MQ=255) aatGTATTTCACAAACGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTa < 1:8203/140‑1 (MQ=255) | CTTTTGATAAACTAATATATTCAATTGTTTGCCTAGCATAATCTCTCATTAAAATATGAGGATATACCATTTCTTTATCAAATATTTCTTCATAAATATAATTAGCAATCTCTATATGTATTTCACAAATGTCGATTCGAAGTGTCGCCCCTAAAACAGAAGCATATAATCTTTCGACTATATATGGATCATTGTTATTTTCAAATAATTTTAATAAACCAATAATTTTAGTTGGAAATGTTTTGAATAATTTTA > USA300TCH1516_ALE/1932724‑1932978 |
| Alignment Legend |
|---|
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: ‑ |