| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | USA300TCH1516_ALE | 1,776,114 | G→A | 36.3% | P137L (CCA→CTA) | clpX ← | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | USA300TCH1516_ALE | 1,776,114 | 0 | G | A | 36.3% | 9.3 / 16.8 | 21 | P137L (CCA→CTA) | clpX | ATP‑dependent Clp protease ATP‑binding subunit ClpX |
| Reads supporting (aligned to +/- strand): ref base G (4/8); new base A (3/4); total (7/14) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.80e-01 | |||||||||||
CTACATAAATAATACCTTTTTCGGCTTTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCATCTTCTTTTGGTCCTAATTGTTGAATACGCTTATAGT > USA300TCH1516_ALE/1775980‑1776249 | cTACATAAATAATACCTTTTTCGGCTTTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATAGTACAt < 1:77252/141‑1 (MQ=255) aCATAAATAATACCTTTTTCGGCTTTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATAGTACATTc < 1:564113/141‑1 (MQ=255) cATAAATAATACCTTTTTCGGCTGTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATAGTACATTCa < 1:93/141‑1 (MQ=255) taCCTTTTTCGGCTTTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTgg < 1:29623/141‑1 (MQ=255) ttttCGGCTTTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAg > 1:260149/1‑141 (MQ=255) tCGGCTTTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGtt < 1:66179/141‑1 (MQ=255) cAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTTGCTAAGGTTTGAGCtaata < 1:322195/141‑1 (MQ=255) cAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCtaata < 1:321946/141‑1 (MQ=255) cAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCAc > 1:429808/1‑141 (MQ=255) gctTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATAGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCt > 1:212138/1‑141 (MQ=255) tGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGtt > 1:358182/1‑141 (MQ=255) gATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAAt > 1:58523/1‑141 (MQ=255) catcGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATCGTATTATTAGCGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTa < 1:418165/141‑1 (MQ=255) cATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATAGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAAcat < 1:498667/141‑1 (MQ=255) aGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCAtcttc < 1:497931/141‑1 (MQ=255) gCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCAtcttct < 1:14082/141‑1 (MQ=255) aaaCTTTTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTGGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCATCTTCTTTTGGTCCt < 1:197374/141‑1 (MQ=255) aaaCTTGTCGCATCTGCAATGGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCATCTTCTTTTGGTCCt < 1:439322/141‑1 (MQ=255) cATCTGCAATTGCAAATAGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCATCTTCTTTTGGTCCTAATTGTTGaa > 1:198339/1‑141 (MQ=255) aTTGCAAATAGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCATCTTCTTTTGGTCCTAATTGTTGACTACGCTta > 1:508470/1‑141 (MQ=255) cAAATTGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCATCTTCTTTTGGTCCTAATTGTTGAATACGCTTATAGt < 1:361840/141‑1 (MQ=255) | CTACATAAATAATACCTTTTTCGGCTTTATCAATGTCAAAGTCAGCTGCTTGAATTAATCTCAACAAGATATTTTCAACATCATCGCCTACATAACCAGCTTCAGTTAAACTTGTCGCATCTGCAATTGCAAATGGTACATTCAACGTCTTGGCTAAGGTTTGAGCTAATAATGTTTTACCACTACCTGTTGGCCCAATTAATGCAATGTTACTTTTTTGTAATTCAACATCATCTTCTTTTGGTCCTAATTGTTGAATACGCTTATAGT > USA300TCH1516_ALE/1775980‑1776249 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |