| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 933,033 | T→C | 100% | intergenic (‑74/‑27) | nfuA ← / → USA300HOU_RS04645 | Fe/S biogenesis protein NfuA/hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 933,033 | 0 | T | C | 97.4% | 121.1 / ‑4.0 | 38 | intergenic (‑74/‑27) | nfuA/USA300HOU_RS04645 | Fe/S biogenesis protein NfuA/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (0/1); new base C (19/18); total (19/19) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.26e-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. | |||||||||||
CGAAGACGTTCAATAACTTCTGCTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAATCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGCTACAGCCGCTATTAA > USA300TCH1516_ALE/932901‑933165 | cGAAGACGTTCAATAACTTCTGCTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGAAAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCaa > 1:152170/1‑140 (MQ=255) gAAGACGTTCAATAACTTCTGCTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCaaa < 2:30217/140‑1 (MQ=255) gACGTTCAATAACTTCTGCTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCa < 2:281368/140‑1 (MQ=255) tAACTTCTGCTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGAt < 1:154468/140‑1 (MQ=255) ggtACTTGTTCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGGGATGAATTTGATAATCTTTTTGAGTATATTATAAGAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAatatat < 2:124279/138‑1 (MQ=255) gCTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGCGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAatatat > 2:216955/1‑140 (MQ=255) cTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTAGATAATCTTTATTAGTATATTATAATAGATAGTGAAATAAAAACATATCAAACCAATGGTGTATAAAAATATg > 1:262985/1‑140 (MQ=255) cAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTg < 1:5021/140‑1 (MQ=255) cATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAgtg < 1:359850/140‑1 (MQ=255) ttCAGTAGGCATCAGGCATGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATg < 2:401086/140‑1 (MQ=255) tCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCTATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATgg < 2:293891/140‑1 (MQ=255) gTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAATCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGc < 2:346163/140‑1 (MQ=255) aTCAGGCAAGGCTCCTTTCGGGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAGATATATGGAGCTTGTGAGTGTGGTAGTTTATGGGGCAGATGt < 2:364157/140‑1 (MQ=255) tCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTCTCGAATAAATAGGGGATAAATATATAGAACACGTAAGAGTGATAGTTAATGAGGAAGATGtt > 1:126672/1‑140 (MQ=255) aGGCACGTCTCCTTCCGAGAGATGAACTTGATAATCCTTATTAGTATATTATAATAGATAGTGTAATAACATCCTATCAAACCAACGTGGGTTAAATATATGGAGCACGAGAGTGCAGTCGTTTAAGGAGGAGATGTtat > 2:125124/1‑140 (MQ=255) aGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTtat > 1:348804/1‑140 (MQ=255) aGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTtat > 2:85875/1‑140 (MQ=255) aGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATAGGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTtat > 2:344200/1‑140 (MQ=255) tggaagaTGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGt < 1:547052/136‑1 (MQ=255) gagaTGAATTTGTTAAGTTTTATTAGTATAGTATAAGAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAAGATATGGATCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTaa < 2:152170/140‑1 (MQ=255) aTGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATgc > 2:350029/1‑140 (MQ=255) gAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATgcgc > 1:94659/1‑140 (MQ=255) aTAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATc < 2:392303/140‑1 (MQ=255) aaTCTTTATTAGTATATTATAATAGATAGTGTACTAAAAACCTATTAAACCAATGGGGGATAAATATATGGGGCACGTGAGTGTGGTAGTTTATGGGGCAGAGGTTATAAAAAGATATTTTGTTTATGCGCCAACATCGa < 1:267412/140‑1 (MQ=255) aTCTTTATTAGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGAGTGGTAGTTTAAGGGACAGAAGATATATGTACAAGTTGCATTAATACGCCAACATCGaa > 1:130567/1‑140 (MQ=255) tattaGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGata > 2:437248/1‑140 (MQ=255) ttaGTATATTATAATAGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATGtt > 2:245152/1‑140 (MQ=255) tataATAGATAGTGTAATAAACACCTAACAAACCAATGGGGGATAAATATATGGAGCACGTGAGAGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACggg > 2:528732/1‑140 (MQ=255) ataataGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGc < 1:363122/140‑1 (MQ=255) aataGATAGTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGAAACATGCGTGAATGCGCCAACATCGAAAGATATTTATGACTGGCTa > 1:512072/1‑140 (MQ=255) atagatagTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGCTAc > 2:185743/1‑140 (MQ=255) atagatagTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGGGCGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGCTAc > 1:118599/1‑140 (MQ=255) gatagTGTAATAAAGACCTGTCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGCTACAGc > 1:358828/1‑140 (MQ=255) tagTGTAATAAAAACCTAGCAAACTAATGGGGGATAAATAGAGAGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATTTGCAACTTGCGTTAATTCGCCAACATCGAAATATATTTATGACTGGCTACAGCCg < 2:48471/140‑1 (MQ=255) agTGTAATAAAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGCTACAGCCGc < 1:216955/140‑1 (MQ=255) taataaAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGGCAACATCGAAAGATATTTATGACTGGCTACAGCCGCTAtt < 1:429362/140‑1 (MQ=255) taataaAAACCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGCTACAGCCGCTAtt < 1:429346/140‑1 (MQ=255) ataaAAACCTATCAAACCAATGGGGGATAAATAAAAGGAGCACGTGAATGTAGTAGTTGATGGGGCAGATGTTATATGTGCATGTTGCGTTAATGCGCCAACATCGAAAGAGATTTATAACTGGCTAGAGCCGCTATTaa > 2:362163/1‑140 (MQ=255) | CGAAGACGTTCAATAACTTCTGCTACTTGATCAAACATCGTTGTATCTTCAGTAGGCATCAGGCAAGTCTCCTTTCGAGAGATGAATTTGATAATCTTTATTAGTATATTATAATAGATAGTGTAATAAAAATCTATCAAACCAATGGGGGATAAATATATGGAGCACGTGAGTGTGGTAGTTTATGGGGCAGATGTTATATGTGCAAGTTGCGTTAATGCGCCAACATCGAAAGATATTTATGACTGGCTACAGCCGCTATTAA > USA300TCH1516_ALE/932901‑933165 |
| 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: ‑ |