| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 2,028,583 | G→T | 100% | A21D (GCC→GAC) | USA300HOU_RS10230 ← | hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 2,028,583 | 0 | G | T | 96.1% | 100.6 / ‑4.2 | 41 | A21D (GCC→GAC) | USA300HOU_RS10230 | hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base G (1/1); new base T (17/21); total (19/22) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
| 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. | |||||||||||
ATAGCGCGCCTATCCAAAACGCCAAAAGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGGCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCCACAGCGTTCATATAATTTATTAGATACGATGTTTTTTCTGTTGCTATTTTTTCA > USA300TCH1516_ALE/2028449‑2028719 | aTAGCGCGCCTATCCAAAACGCCAAAAGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCaata < 1:517227/140‑1 (MQ=255) ccTATCCAAAACGCCAAAAGGCCACGTATTTTATGAAAATAAAGATATCCTAAATAAACTACTACAGATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATGTGTAGTAAAAATTGTCAATAATCATTaa > 2:253/1‑140 (MQ=255) cTATCCAAAACGCCAAAAGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTATAAATAAtaattaat > 1:398648/1‑140 (MQ=255) cAAAAGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACGCATCCCACTAATAGAACGAGTAAAAAGCCAAT‑TTTGTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCCGTAAAAATGa > 2:39976/1‑140 (MQ=255) aaaGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGGCAATAATCATTAATGCAGTAAAAATGATc < 1:187938/140‑1 (MQ=255) aGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCaa > 1:491044/1‑140 (MQ=255) aGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGAACaa > 2:395975/1‑140 (MQ=255) aGGCCACATATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGAAGTAAAAATTGTCAATAATCATTAATGCAGTACAAATGATCaa > 1:343601/1‑140 (MQ=255) caactATGTTATGAAAATAAAGATATCCTACATAAACTAATACACATCACAATTATACAACTAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACAtt < 1:128125/136‑1 (MQ=255) cACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACAtt < 2:338193/140‑1 (MQ=255) cACGTATTTTATGAAAATAAAGATATACTACATTAACCAATACACATCCCAATAATAGAACGACTAAAAAACCAAA‑ATATTCAAATAATATGTAGTAAAAATTGTCAATAATCATTAATGTAGTAAAAATGATCAACAtt < 1:357858/140‑1 (MQ=255) cACGTACTTTATGAAAATAAAGATATCCTACATAAACTATTTCAGACTCCACTATTAGAAGTAGTAAAAAGTCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACAtt < 2:30991/140‑1 (MQ=255) cGTATTTTATGATAATAAAGATATTCTTCATAAACTAATACACATCGCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTg < 1:232385/140‑1 (MQ=255) ttattaAAATAAAGATATCCTACTTAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCAAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGa < 1:132610/140‑1 (MQ=255) atcacaaTAAAGATATCCTACATCATCTAATAAACATCCCAATAATTGAACGAATAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATTTTCAACATGTGCGTTGata < 2:242340/135‑1 (MQ=255) aTGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGata < 1:390130/140‑1 (MQ=255) gaaaGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TATTACAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATAttt < 2:264474/139‑1 (MQ=255) aaaGATTACCTACATAAACTAACACACATCCCAATAATAGAACGAGTAAAAAGCCAAA‑AATAAAAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTtg < 2:447065/140‑1 (MQ=255) tatCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATGGTCAATAAAAACAAAATCAGTAAAAATGATCAACATTTGCGTTGGAAGATATTggtgtat > 1:345153/1‑138 (MQ=255) tACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGGTGATAAATATTTGGTTGTCATGt > 2:233307/1‑140 (MQ=255) tACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATAAACATTTGCGTTGATATATATTTGTGTGTAATGt > 2:470560/1‑140 (MQ=255) aCATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTTTTATTTTTTGTAGTAAAAATAGTCAATAATCATTAATACGGTCAAAATGCTCGACATTCGCGTTGACATATATTTGAGAGTcccgct > 2:95249/1‑135 (MQ=255) aCATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TGTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTACTGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGtt < 1:105905/140‑1 (MQ=255) tAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTcg < 1:508388/140‑1 (MQ=255) tAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTcg < 1:228842/140‑1 (MQ=255) aaaaCTAAAAAGCATCCCAAAAATAGAAAGAGTAAAAAGCAAAA‑ATAAAAAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTcg < 2:398648/139‑1 (MQ=255) aaaCTAATACCTATCCCAATAATACAACGAGTAAACAGCAAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAAGGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTcgc < 2:449112/140‑1 (MQ=255) aaaCTAATACACATCCAAATAATAGTACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCACTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTcgc < 1:332477/140‑1 (MQ=255) cacaTCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATTTACATGCGTTTGTCATGTTTCGCCGCCctttt > 2:524810/1‑138 (MQ=255) cacaTCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCt > 1:229206/1‑140 (MQ=255) ccaactaaaaGAACGAAGAAAACCCCAAA‑TTCTTCAAAAAATATGTAGTAAAAATTGTCGATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGcc < 1:283669/135‑1 (MQ=255) ccAATAATAGAACAAGTTAAATGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCca < 2:272088/140‑1 (MQ=255) aataatAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCcaca > 2:372549/1‑140 (MQ=255) aataatAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCcaca < 1:120715/140‑1 (MQ=255) taataGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTATGTCATGTTTCGCCGCCTTTCTATACCCCAGc > 1:183982/1‑140 (MQ=255) gAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCCACAGCGTTCa > 1:33599/1‑140 (MQ=255) caaaaGCCAAT‑ACTTTCGACAAAGCGGTAGTAAAAATTGCCAATAATCATTAATGCAGTCAAAATGATCAACATTTGCTGTTATATATATGTGTGTGTCATGTTTCGCCGCCTTTCTATGCAACATCGGTCatatctttt > 2:538574/2‑135 (MQ=255) aaaaaGCCAAT‑TTTTTCAAAGAATTTGTAGTAAAAATAGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCGACAGCCTTCATATAAttt > 2:119925/1‑140 (MQ=255) aaaaGCCAATATTTTTTTTAAAAT‑TGAAGTAAAAATGGGCAATAATCATTAATCCAGTAAAAATGATCAACATTTGCGTTGTTATATATTTGTGTGTACTGTTTGGACGGTATGCTATTCTACAGCGTTCATATAATtta > 2:113844/1‑140 (MQ=255) gCCAAT‑TTTTTCAAAAAATATGTAATAAAAATTGTCAATAATCATAAATGCAGTAAAAATGATCAACATTTGCGTTGATATATAATTGTGTGGCGTGTTTCGCCGCCTTTCTATGCCAAATCGTTGATATAattaattaa > 2:226908/1‑139 (MQ=255) ttGTCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCCACAGCGTTCATATAATTTATTAGATACGATGTTTTTTCTGTTGCTATTTTTTCa < 1:233307/140‑1 (MQ=255) | ATAGCGCGCCTATCCAAAACGCCAAAAGGCCACGTATTTTATGAAAATAAAGATATCCTACATAAACTAATACACATCCCAATAATAGAACGAGTAAAAAGCCAAT‑TTTTTCAAAAAATATGTAGTAAAAATTGGCAATAATCATTAATGCAGTAAAAATGATCAACATTTGCGTTGATATATATTTGTGTGTCATGTTTCGCCGCCTTTCTATGCCACAGCGTTCATATAATTTATTAGATACGATGTTTTTTCTGTTGCTATTTTTTCA > USA300TCH1516_ALE/2028449‑2028719 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |