| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 2,268,563 | C→T | 7.3% | intergenic (‑451/+87) | USA300HOU_2142 ← / ← USA300HOU_2143 | hypothetical protein/possible HAD superfamily hydrolase |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 2,268,563 | 0 | C | T | 7.3% | 165.3 / 3.7 | 55 | intergenic (‑451/+87) | USA300HOU_2142/USA300HOU_2143 | hypothetical protein/possible HAD superfamily hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (21/30); new base T (2/2); total (23/32) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.72e-01 | |||||||||||
ACCTTAAAACAAGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTGCGCCATCCTC > CP000730/2268426‑2268697 | aCCTTAAAACAAGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACAtt > 1:185240/1‑141 (MQ=255)aCCTTAAAACAAGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACAtt > 1:214945/1‑141 (MQ=255) aaaCAAGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTaa < 1:540476/141‑1 (MQ=255) aaaCAAGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTaa < 1:540593/141‑1 (MQ=255) aaCAAGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGCGTTTGTCCAATTACATCTAGATGATTCAACTATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAAt < 1:78438/141‑1 (MQ=255) cAAGAAATATTATTCANAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAg > 1:433344/1‑141 (MQ=255) aaGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGa < 1:539667/141‑1 (MQ=255) aaGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAAAAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGa < 1:468670/141‑1 (MQ=255) tattatTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGTAAAGTTATTTTCTATTAGAAAAtg > 1:5080/1‑140 (MQ=39) ttattCAAAATCAATGAATTTCGTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACt < 2:427650/141‑1 (MQ=255) aaaaTCAATGAATTTCCTATCTTATTAG‑‑TTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGTAAAGTTATTTTCTATTAGAAAAtgtcttactgct < 2:225651/141‑12 (MQ=25) aaTCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGTAAAGTTATTTTCTATTAGAAAAtgtcttactgct < 1:568568/141‑12 (MQ=37) aTCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGctc < 2:206829/141‑1 (MQ=255) cAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCtt < 2:409266/141‑1 (MQ=255) cAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCtt < 1:376043/141‑1 (MQ=255) aaTGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCttt > 1:155553/1‑141 (MQ=255) aTGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTg > 1:429684/1‑141 (MQ=255) gAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTa > 2:560948/1‑141 (MQ=255) aTTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACa < 2:508632/141‑1 (MQ=255) tCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTa < 2:9803/141‑1 (MQ=255) ccTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTTATAGAAAATAACTTTACTGCTCTTTGTTCATTAc > 2:117299/1‑141 (MQ=255) tATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACtc < 2:439368/141‑1 (MQ=255) cTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACtcatc < 1:329794/141‑1 (MQ=255) ttattaGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACtcatca < 2:423608/141‑1 (MQ=255) ttaGTTTTAACAATAGTTATTCTCATAGAGCTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACt > 2:776905/1‑141 (MQ=255) taGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTa > 2:311468/1‑141 (MQ=255) ttttAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTg < 2:462699/141‑1 (MQ=255) tAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGtaa < 1:358497/141‑1 (MQ=255) tAACAACATTTAGTCTAATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGtaa < 1:326653/141‑1 (MQ=255) tatttattCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGtaaattaaa > 1:392870/1‑141 (MQ=255) atttattCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGtaaattaaat < 2:691108/141‑1 (MQ=255) attCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATtaaataata < 2:582525/141‑1 (MQ=255) ttCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATtaaataataa > 1:261526/1‑141 (MQ=255) tctcATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATtaaataataaa < 2:761954/141‑1 (MQ=255) tcATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATtaaataataaata > 1:273861/1‑141 (MQ=255) aTAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAAc < 1:344046/141‑1 (MQ=255) tAGAGTTTGTCCACTTAAATATAGATGATTCAAATATATATAAGCACACAAAAGAGCAGT‑AAGACATTTTCTAATAAAAAATAACTTTACCGCTCTTTGTACATTCTGCAGCAGCTATGGTAAATTAAATAATAAATAACt > 2:13130/1‑141 (MQ=255) tAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACt > 2:424685/1‑141 (MQ=255) gTTTGTCCAATTAAATATAGATGATTAAAATAATAATAAAAAAAAAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCt < 2:354426/141‑1 (MQ=255) ttGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTAt > 1:620458/1‑141 (MQ=255) tCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTAtttt > 2:107796/1‑141 (MQ=255) tCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTAtttt < 2:484539/141‑1 (MQ=255) tataGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGc < 1:288844/141‑1 (MQ=255) taGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTa < 2:157320/141‑1 (MQ=255) tatTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGc < 1:757402/141‑1 (MQ=255) taAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAata > 2:263706/1‑141 (MQ=255) taAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAata > 1:27908/1‑141 (MQ=255) acaaaGAGCAGTAAAGTTATTTTCTATTAGAAAATGTC‑TTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTtgctg > 1:594640/3‑141 (MQ=25) aaGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTTCCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTgcgc < 2:392364/141‑1 (MQ=255) agagCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTGCGcc > 2:87193/1‑141 (MQ=255) agCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTCAATATGTTGCTGCGCCAt > 1:241856/1‑141 (MQ=255) ccgT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTGCGCCATcc < 1:559072/139‑1 (MQ=255) cAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAGCCGCCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTGCGCCATcc < 1:280311/141‑1 (MQ=255) cAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTGCGCCATcc < 2:684422/141‑1 (MQ=255) gT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTGCGCCATCctc > 2:430182/1‑141 (MQ=255) | ACCTTAAAACAAGAAATATTATTCAAAATCAATGAATTTCCTATCTTATTAGTTTTAACAATATTTATTCTCATAGAGTTTGTCCAATTAAATATAGATGATTCAAATATTTATAAGCATACAAAAGAGCAGT‑AAGACATTTTCTAATAGAAAATAACTTTACTGCTCTTTGTACATTACTCATCAACTATTGTAAATTAAATAATAAATAACTACCTATTTTATTATTCAGCTAAAAAATGCTCTGCTAAATATTTTGCTGCGCCATCCTC > CP000730/2268426‑2268697 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |