| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 469,786 | A→G | 100% | G118G (GGA→GGG) | lpl2_6 → | putative lipoprotein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 469,786 | 0 | A | G | 90.7% | 47.2 / ‑2.3 | 21 | G118G (GGA→GGG) | lpl2_6 | putative lipoprotein |
| Reads supporting (aligned to +/- strand): ref base A (1/1); new base G (9/10); total (10/11) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.52e-01 | |||||||||||
| Rejected as polymorphism: E-value score below prediction cutoff. | |||||||||||
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. | |||||||||||
GAGATGGCGAATTTAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGACATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAAGAGAATAGAA > USA300TCH1516_ALE/469650‑469918 | gataTGGCAAATTTAAAATGGGTTATAAAGGGATGGGGACCATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCat < 1:262755/137‑1 (MQ=21) gaTGGCGAATTTAAACAGCGTGGTAAAGAGATGCGGACGATATATACAGATTGCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGACatta < 2:8995/140‑1 (MQ=255) tttAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCATAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTaa < 1:81014/140‑1 (MQ=255) aaaaGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTTGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACa < 1:82721/140‑1 (MQ=255) aatggTGATAAAGGGATGTGGACGATATATACAAATTTCGCCGAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTATTATACTTAGATAGTAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACAtt < 2:136740/137‑1 (MQ=25) gggATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTGTTTTGTTAAGAAATTCTATAATAAggg > 1:39452/1‑140 (MQ=255) tgGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATACTATAATAAGGGCAAAtt > 1:102228/1‑140 (MQ=255) gACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTcc > 2:130694/1‑140 (MQ=255) tataCAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAg > 1:59305/1‑140 (MQ=255) taCAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGaa > 1:281385/1‑140 (MQ=255) aCAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAACTTCCCAGATAGaaa > 2:81885/1‑140 (MQ=255) aaGTAATAAACAAGGTGGAGTGAGTAATGAAGGGATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTtg < 2:21719/140‑1 (MQ=255) cAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGaaaaa < 1:191025/140‑1 (MQ=255) cAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGACATTATTTTGTTAAGACATACTATAATAAGATCAAATACCCAGATAGAAAAAACGATAAAGATAAAAAGaaaaa > 1:24887/1‑140 (MQ=255) aTTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATaaaa > 1:101855/1‑140 (MQ=255) ttGAGTTATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAAt < 1:226096/140‑1 (MQ=255) tGAGTAATGAAGGTATTGTCTTATACTTAGATAGAAATACAAGGAATGCAAAGGGGCATTATTTTGTTAAGACATTCTATAAGAAATACAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAAtt < 1:139361/140‑1 (MQ=21) tGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCttat < 2:32558/140‑1 (MQ=255) ggTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCCGATAGAAAAAATTATAAAGTTGAAATGAAAAATGATAAAATTATATTATTAGa > 2:38679/1‑140 (MQ=255) gttagaAATACACGGACTGCAAAGGGGCATTATTTTGGTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATTATAAAATTATCTTATTAGATAAAGTAGAAGATACaaa < 2:102228/138‑1 (MQ=255) cAAAGGGGCATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAAGAGAATAGaa > 2:136131/1‑140 (MQ=255) | GAGATGGCGAATTTAAAAAGGGTGATAAAGGGATGTGGACGATATATACAGATTTCGCCAAAAGTAATAAACAAGGTGGATTGAGTAATGAAGGTATGGTCTTATACTTAGATAGAAATACACGGACTGCAAAGGGACATTATTTTGTTAAGACATTCTATAATAAGGGCAAATTCCCAGATAGAAAAAATTATAAAGTTGAAATGAAAAATAATAAAATTATCTTATTAGATAAAGTAGAAGATACAAATCTAAAAAAGAGAATAGAA > USA300TCH1516_ALE/469650‑469918 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |