| Predicted mutation | |||||||
|---|---|---|---|---|---|---|---|
| evidence | seq id | position | mutation | freq | annotation | gene | description |
| RA | CP000730 | 1,929,925 | T→A | 51.0% | intergenic (‑1008/‑160) | USA300HOU_1794 ← / → USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Read alignment evidence... | |||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
| * | CP000730 | 1,929,925 | 0 | T | A | 51.0% | ‑4.6 / 69.8 | 51 | intergenic (‑1008/‑160) | USA300HOU_1794/USA300HOU_1796 | hypothetical protein/hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base T (12/13); new base A (21/5); total (33/18) | |||||||||||
| Fisher's exact test for biased strand distribution p-value = 2.01e-02 | |||||||||||
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.20e-01 | |||||||||||
CTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCT > CP000730/1929786‑1930064 | cTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGttt > 1:14277/1‑141 (MQ=255) atatTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTc < 1:285647/141‑1 (MQ=255) tattcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACtt > 1:122592/9‑141 (MQ=255) tcacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCAAATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTAtt > 1:91212/6‑141 (MQ=255) tGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTAtt > 2:108555/1‑141 (MQ=255) cacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGCAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTg > 1:152294/5‑141 (MQ=255) cacagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑T‑TACT‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTg > 2:42977/5‑141 (MQ=255) gCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGAAACTTATTTTTGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTg > 1:77367/1‑141 (MQ=255) cagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc < 2:139902/139‑1 (MQ=255) cagatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGc > 2:329878/3‑141 (MQ=255) cgttgattgtataGTTGAGTCGTCTATCTCGCAGGCGTCAATTTAGACGCAGAGAGGAGGTTTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCAAATCATAGCTCCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGc < 2:136383/131‑1 (MQ=255) agatggtATAATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑T‑TA‑C‑TTTGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCt > 1:40252/2‑141 (MQ=255) ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCACTT‑‑GACGAAGAGAGGAGGTGCA‑T‑TA‑CTT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATGAGTTGCTGTGCTGTTGCGTATTTTTCTTGTTGGCttata > 1:11708/3‑137 (MQ=255) ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt > 1:310193/3‑141 (MQ=255) ggtataATAATAGAGTCGCCTATCTCTCAGGCGTCAA‑‑TGGACGAAGAGAGGAGGTGCATT‑AC‑T‑C‑TGCTAATCATTTTCGGTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGt < 2:94460/139‑1 (MQ=255) gtataATAATAGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTa > 2:300018/2‑141 (MQ=255) atatAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGt > 1:289981/1‑141 (MQ=255) tataATAGTAGAGGCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTa < 1:321193/141‑1 (MQ=255) taataGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AC‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGa > 1:128062/1‑141 (MQ=255) ataataGAGTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGc < 1:283091/141‑1 (MQ=255) ataGTAGGGTCGCCTATCTCTCAGGCGTTAATTTATACGCAGGGAGGAGGTATA‑T‑AA‑G‑G‑GGATGCATATTTTCGTTCACATCATCGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTATGtgggag < 2:252941/141‑6 (MQ=255) gtagAGTCTGCTATCTCTCAGGCGTCAATTTATACGCAGATAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCaa < 1:31861/141‑1 (MQ=255) gagTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaa > 1:194162/1‑137 (MQ=255) agTCGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑T‑TA‑CTT‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTAATTGGCTTAGTAAACGCaacgaat > 1:101432/1‑136 (MQ=255) gccGCCTATCTCTCAGGCGTCCATT‑‑GACGAAGTGAGGAGGTGCA‑T‑TA‑C‑TTTGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaata < 1:111180/139‑7 (MQ=255) cGCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaagaat > 2:74143/1‑133 (MQ=255) gCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAAt < 1:236510/141‑1 (MQ=255) gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt > 1:131133/1‑132 (MQ=255) gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt > 2:290875/1‑132 (MQ=255) gCCTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑T‑TACT‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatt > 1:131138/1‑132 (MQ=255) ccTATCTCTCAGGCGTCAATTTAGACGCAGCGAGGCGGCGTT‑C‑AA‑T‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAGTACAAGATa > 2:219080/1‑141 (MQ=255) ccTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataatta > 2:140636/1‑131 (MQ=255) cTATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑TCAC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaa < 2:169084/141‑12 (MQ=255) tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaatgattaat > 2:329713/1‑129 (MQ=255) tATCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑T‑TACT‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaat > 1:119945/1‑129 (MQ=255) aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata > 2:52411/1‑128 (MQ=255) aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCATT‑AC‑T‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata > 1:110041/1‑128 (MQ=255) aTCTCTCAGGCGTCAATT‑‑GACGAAGAGAGGAGGTGCA‑T‑TACT‑T‑TGCTAATCATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCTGTTGCGTATTATACTTATTGGCTTAGTAAACGCaacaaataattaata > 2:84230/1‑128 (MQ=255) tcAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACat > 1:284260/1‑141 (MQ=255) cGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACAtatacc > 1:758/1‑139 (MQ=255) aggaggTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATcccc > 1:254420/1‑141 (MQ=255) ggaggTTTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCt < 2:256696/141‑1 (MQ=255) aggTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCa < 2:242382/141‑1 (MQ=255) tgtA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACtt > 1:49376/1‑140 (MQ=255) ttATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAATAATCCCCTCACTACCGCAAATAGTGAgg < 1:211507/141‑1 (MQ=255) ttCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTCTTGTCAAATGATACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGAtt < 1:242614/141‑1 (MQ=255) ttCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAGTAGTGGGGGGagt > 1:32641/1‑139 (MQ=255) ttCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGAtt < 1:51801/141‑1 (MQ=255) atAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAACCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTa > 2:206197/1‑141 (MQ=255) aGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTa > 2:312972/1‑141 (MQ=255) aGTGGCTGTGCCATTGCGTTTTTTTCATATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAACCCCCTCACTATCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATATATATTTTCGt < 1:244606/141‑1 (MQ=255) gtgCCATGGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTa < 1:88590/141‑1 (MQ=255) tttttttCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCt < 1:182178/141‑1 (MQ=255) | CTTGTATATTTGCCGATGATATAATAGTAGAGTCGCCTATCTCTCAGGCGTCAATTTAGACGCAGAGAGGAGGTGTA‑T‑AA‑G‑G‑TGATGCTTATTTTCGTTCACATCATAGCACCAGTCATCAGTGGCTGTGCCATTGCGTTTTTTTCTTATTGGCTAAGTAGACGCAATACAAAATAGGTGACATATAGCCGCACCAATAAAAATCCCCTCACTACCGCAAATAGTGAGGGGATTGGTGTATAAGTAAATACTTATTTTCGTTGTCTTAATTATACTGCT > CP000730/1929786‑1930064 |
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |