Predicted mutation
evidence seq id position mutation annotation gene description
RA USA300TCH1516_ALE 1,535,291 G→A Q14* (CAA→TAA)  lapB ← Lipopolysaccharide assembly protein B

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,535,2910GA95.2% 60.6 / NA 21Q14* (CAA→TAA) lapBLipopolysaccharide assembly protein B
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (10/10);  minor base T (0/1);  total (10/11)
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

CACGCGGAATACTTCCAAACCTTGTGGCATTAATCCAAAATTGTAAAGTGTCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTGTAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGATACATTTACAGCATCAAATTGTTTGATTTTGACAGGCT  >  USA300TCH1516_ALE/1535160‑1535425
                                                                                                                                   |                                                                                                                                      
cacGCGGAATACTTCCAAACCTTGTGGCATTAATCCAAAATTGTAAAGTGTCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGCTTTTATAGATTGat                                                                                                                               >  1:3374/1‑141 (MQ=255)
        aTACTTCCAAACCTTGTGGCATTAATCCAAAATTGTAAAGTGTCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTa                                                                                                                       >  2:65081/1‑141 (MQ=255)
                    cTTGTGGCATTAATCCAAAATTGTAAAGTGTCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGa                                                                                                           >  2:12697/1‑141 (MQ=255)
                     ttGTGGCATTAATCCAAAATTGTAAAGTGTCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGat                                                                                                          >  1:145547/1‑141 (MQ=255)
                                  ccAAAATTGTAAAGTGTCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTta                                                                                             <  2:184075/141‑1 (MQ=255)
                                         tGTAAAGTGGCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATc                                                                                      <  1:182020/141‑1 (MQ=255)
                                                    tctcCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCt                                                                           >  1:146820/1‑141 (MQ=255)
                                                      tcCTAGAATAAATACTGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTaa                                                                         <  1:129353/141‑1 (MQ=255)
                                                                    atGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTg                                                           <  2:123790/141‑1 (MQ=255)
                                                                     tGCGTCATCGTTGTCAGTAGTTATTGCGTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTgg                                                          <  1:7602/141‑1 (MQ=255)
                                                                             cGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATc                                                  >  1:145723/1‑141 (MQ=255)
                                                                              gTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATcc                                                 <  2:188746/141‑1 (MQ=255)
                                                                               ttGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCt                                                <  1:11468/141‑1 (MQ=255)
                                                                                        gtTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTTTAAGCCGGTATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGAt                                       <  2:167481/141‑1 (MQ=255)
                                                                                        gtTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGAt                                       >  1:11670/1‑141 (MQ=255)
                                                                                         ttATTGGTTCTTTATCACGAGAGTCTAAATTTTGTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGATa                                      <  2:81701/141‑1 (MQ=255)
                                                                                                        cacGAGAGTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGATACATTTACAGCATCaa                       >  1:45212/1‑141 (MQ=255)
                                                                                                             gagTCTAAATTTTCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTTTTAAAATTCCTGGAAATAATACATTTACACCATCAAAtttt                  >  2:234225/1‑139 (MQ=255)
                                                                                                                       tttCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGATACATTTACAGCATCAAATTGTTTGATTTTGa        <  1:204264/141‑1 (MQ=255)
                                                                                                                        ttCTAGTTTTTATAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGATACATTTACAGCATCAAATTGTTTGATTTTGAc       <  1:12697/141‑1 (MQ=255)
                                                                                                                             gTTTTTATAGATTGATATCGTCTATTAATTTATAGATAACTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGATTGGGTAGAAATCCTGGAAATGATACATTTACAGCATCAAATTGTTTGATTTTGACAGGCt  >  1:197636/1‑141 (MQ=255)
                                                                                                                                   |                                                                                                                                      
CACGCGGAATACTTCCAAACCTTGTGGCATTAATCCAAAATTGTAAAGTGTCTCTCCTAGAATAAATAATGCGTCATCGTTGTCAGTAGTTATTGCTTCATTAACACGAGAGTCTAAATTTTCTAGTTTTTGTAGATTGATATCGTCTATTAATTTATAGATATCTTCCATTTTATATTATCCCTCATTTTCTAAAAGCTTTAGTTTTGGTAAAAATCCTGGAAATGATACATTTACAGCATCAAATTGTTTGATTTTGACAGGCT  >  USA300TCH1516_ALE/1535160‑1535425

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: ‑