| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,017,678 | T→C | 59.6% | F391S (TTC→TCC) | acp → | Sodium/proton‑dependent alanine carrier protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,017,678 | 0 | T | C | 59.6% | 10.3 / 22.0 | 24 | F391S (TTC→TCC) | acp | Sodium/proton‑dependent alanine carrier protein |
| Reads supporting (aligned to +/- strand): ref base T (4/5); new base C (5/9); total (9/15) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.29e-01 | |||||||||||
ATGCAACAGGTAAAGATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACATTTTAC > USA300TCH1516_ALE/1017540‑1017817 | aTGCAACAGGT‑AAGATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTcttctt < 1:142089/141‑1 (MQ=255) gATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACa > 2:58493/1‑141 (MQ=255) ttCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAAtttt < 1:23444/141‑1 (MQ=255) ttCAGGTACTGCGATGGATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAAtttt < 1:299174/141‑1 (MQ=255) ggTACTGCGATGTATGCACGAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCg > 1:237205/1‑141 (MQ=255) gCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGtactac < 2:39750/141‑1 (MQ=255) aTGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACACTTTTGTCGTCCTACTACATTa > 1:35230/1‑141 (MQ=255) cATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGt > 1:331799/1‑141 (MQ=255) cATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGt < 1:369870/141‑1 (MQ=255) ggTTCCTTGGTCGTGTTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACCAATGTTGCTTATTTaa < 2:321480/140‑1 (MQ=255) cGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTaa < 1:39065/141‑1 (MQ=255) cGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTaa < 2:375050/141‑1 (MQ=255) ccATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAAcgcg > 2:17877/1‑141 (MQ=255) cATGGTAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGt < 2:214915/141‑1 (MQ=255) ttGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGttt > 2:101260/1‑141 (MQ=255) ctctGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGAtatttat < 1:117282/141‑1 (MQ=255) tctGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGAtatttatt < 1:101260/141‑1 (MQ=255) aGGTTCGTACTTTATTGCATTTGCTTTATTCTGCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGGTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGc < 1:264304/141‑1 (MQ=255) aGGTTCGTACTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTAAACTTGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGc < 1:271435/141‑1 (MQ=255) cTTTATTGCATTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGAATTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGat < 1:74592/141‑1 (MQ=255) ttATTTCATTTTCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGAACCACTACATTACAGAAACAAATGTTACTTATTTAACTCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGatta < 2:16040/141‑1 (MQ=255) tgaTTGCATTTGCTTGATTCTCCTTTGCATTTACTATAATTTTGTCGTACTACTAAATTACACAAACAAATGTTGCTTATTTCACGCGTAATCAAAATAATCAAGTTTCATTGATATTTATTAATATTGCTCGTGTGatta < 2:29421/139‑1 (MQ=255) aTTTGCTTTATTCTCCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGTCCGTGTGATTATTTTGtt > 2:306955/1‑141 (MQ=255) tATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAt > 2:172608/1‑141 (MQ=255) tATTCTCCTTTGCATTTACTAAAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAt > 1:335304/1‑141 (MQ=255) ttctccTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAttt < 1:17877/141‑1 (MQ=255) tctcctGTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGTTTTTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACAtttt < 1:13300/141‑1 (MQ=255) ttcttTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACATTTTAc < 2:183090/141‑1 (MQ=255) | ATGCAACAGGTAAAGATTATTCAGGTACTGCGATGTATGCACAAGCCGGCATTGATAAAGCGTTCCATGGCAGTGGTTATCAATTTGATCCTACTTTCTCTGGCGTAGGTTCGTACTTTATTGCATTTGCTTTATTCTTCTTTGCATTTACTACAATTTTGTCGTACTACTACATTACAGAAACAAATGTTGCTTATTTAACGCGTAATCAAAATAATCAAGTTTCATCGATATTTATTAATATTGCTCGTGTGATTATTTTGTTCGCTACATTTTAC > USA300TCH1516_ALE/1017540‑1017817 |
| 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: ‑ |