Predicted mutation
evidence seq id position mutation freq annotation gene description
RA USA300TCH1516_ALE 1,472,896 T→C 7.0% K9710E (AAG→GAG)  ebh_1 ← Extracellular matrix‑binding protein ebh

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*USA300TCH1516_ALE1,472,8960TC 7.0% 158.9 / 2.7 57K9710E (AAG→GAG) ebh_1Extracellular matrix‑binding protein ebh
Reads supporting (aligned to +/- strand):  ref base T (24/29);  new base C (2/2);  total (26/31)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.09e-01

AAATCTTTGATGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCTTGTAATGCTTGCGCAAGTTGTGCTTTGGCTTG  >  USA300TCH1516_ALE/1472757‑1473034
                                                                                                                                           |                                                                                                                                          
aaaTCTTTGATGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTa                                                                                                                                           >  1:155997/1‑141 (MQ=255)
   tCTTTGATGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGAGCTTGTTGTAGTGTTTGATTGATTTGCTATTTGTGTGTTTGTTTTTGCTTATCt                                                                                                                                        >  2:885174/1‑141 (MQ=17)
   tCTTTGATGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCCATAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCt                                                                                                                                        <  1:684528/141‑1 (MQ=255)
       tGATGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAGTTTCTTCTTTAGTGAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTCTCTGTTa                                                                                                                                    >  2:277470/1‑141 (MQ=255)
        gATGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAg                                                                                                                                   <  1:330097/141‑1 (MQ=255)
          tctctcGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTGCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGAt                                                                                                                                 <  2:140421/139‑1 (MQ=255)
          tGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGAt                                                                                                                                 <  2:422079/141‑1 (MQ=255)
          tGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGAt                                                                                                                                 <  2:302242/141‑1 (MQ=255)
          tGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGAt                                                                                                                                 <  1:706446/141‑1 (MQ=255)
            tCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTCATCTGTTAGAttt                                                                                                                               >  1:863785/1‑141 (MQ=255)
            tCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTCATCTGTTAGAttt                                                                                                                               >  1:863400/1‑141 (MQ=255)
                  aaTGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGAttt                                                                                                                         >  1:55328/1‑141 (MQ=255)
                       ttGTCCAAGTTGTGCTGTTGCCTGGCCAATTTCTTCGTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATGCGATATTTAAGTGCTTGTTTTTCCTTATCTGTGAGATTTGGATTTTGATc                                                                                                                    <  1:162641/141‑1 (MQ=14)
                        tgggCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCg                                                                                                                   <  1:484995/138‑1 (MQ=255)
                            cAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGAttt                                                                                                               >  1:19191/1‑141 (MQ=255)
                              aGTTGTGCTTTTGCCTGCTCAGTCGCTGCGTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTct                                                                                                             >  2:669122/1‑140 (MQ=17)
                              aGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGCTTTCg                                                                                                             >  2:300392/1‑141 (MQ=255)
                               gTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATTTTTTAGATTTGGATTTTGATCGTTTTCGt                                                                                                            >  2:161367/1‑141 (MQ=255)
                                    gCTTTTGGCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAAtt                                                                                                       <  2:716845/141‑1 (MQ=255)
                                          tcttggccAATCTCTTTTTTAGTCAGCCCATTGTTAATGTCGTTATGTTCTTGTTGAATTATTTTATTAATTCTATATTTAATTGCTTGTATTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCt                                                                                                 <  2:122290/134‑1 (MQ=14)
                                          gCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATTTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCt                                                                                                 <  1:256916/141‑1 (MQ=255)
                                            cTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTg                                                                                               >  1:167607/1‑141 (MQ=255)
                                              gCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGaa                                                                                             <  2:19191/141‑1 (MQ=255)
                                                       tttcttTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTAt                                                                                    <  1:672682/140‑1 (MQ=255)
                                                        ttcttTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATc                                                                                   >  1:190270/1‑141 (MQ=255)
                                                        ttcttTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATGAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATc                                                                                   <  1:932704/141‑1 (MQ=255)
                                                         tcttTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGCAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTGATCa                                                                                  >  1:856237/1‑141 (MQ=255)
                                                         tcttTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTCTCTGTTAGATTTGGATTTTGATCGCTTTCGTCAATTAAAGATTGAACTTGTTTCTCa                                                                                  >  1:423667/1‑141 (MQ=255)
                                                            ttACTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGGAGTCTTTGATTAATTCGTTATTTACGTGCTTGTTTTTCCTTATCGGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACa                                                                               <  2:397161/141‑1 (MQ=255)
                                                             tAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACAt                                                                              >  2:685128/1‑141 (MQ=255)
                                                              aGTCAGCGCATTGTTACTGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATc                                                                             >  1:470810/1‑141 (MQ=255)
                                                                tCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCtt                                                                           <  2:636589/141‑1 (MQ=255)
                                                                       aTTGTTAATGTCGTTATGACTTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGCACTTGTTTATCAACATCTTGTTTCGc                                                                    <  1:103792/141‑1 (MQ=255)
                                                                       aTTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGc                                                                    >  1:64984/1‑141 (MQ=255)
                                                                       aTTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGc                                                                    <  1:193871/141‑1 (MQ=255)
                                                                        ttGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTg                                                                                                                              >  2:552218/1‑82 (MQ=255)
                                                                        ttGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTg                                                                                                                              >  2:552214/1‑82 (MQ=255)
                                                                          gTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCAtc                                                                 <  2:169541/141‑1 (MQ=255)
                                                                             aaTGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTTCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCAtcttc                                                              <  1:63493/141‑1 (MQ=255)
                                                                                gTCGTTATGCCCTTGTTGAAGTATTTGGTTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACGTGTTTATCAACATCTTGTTTCGCATCTTCttt                                                           <  1:563695/141‑1 (MQ=255)
                                                                                gTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCttt                                                           <  1:605443/141‑1 (MQ=255)
                                                                                gTCGTTATGACCGTTTTGGAGTATTTGATTAATGCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTGGGTTTGGATTTTGCTCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCttt                                                           <  1:449672/141‑1 (MQ=18)
                                                                                             tgttgAAGTATTTGCTTAATTAGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCATCAATTAAAGCTCGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTaaa                                              >  2:646688/1‑141 (MQ=255)
                                                                                             tgttgAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTAGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTaaa                                              >  2:645567/1‑141 (MQ=255)
                                                                                                  aaGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTCATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCttt                                         <  2:863785/141‑1 (MQ=255)
                                                                                                  aaGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTCATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCttt                                         <  2:863400/141‑1 (MQ=255)
                                                                                                   aGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTg                                        <  2:190270/141‑1 (MQ=255)
                                                                                                          ggttAATTTGTTATTTCGGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTAATTGATTTCGTCACTTAAAGCTTTAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCtt                                 <  2:231392/139‑1 (MQ=25)
                                                                                                           aTTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCTTg                                >  1:566538/1‑141 (MQ=255)
                                                                                                               aTTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAATGCTTGAACTTGTTTATCAACGTCTTGTTTCGCATCTTCTTTAGCTTTTACTATATCTTTGATGTGTTGTagt                            >  2:462859/1‑139 (MQ=21)
                                                                                                                      atTTAAGTGCTTGTTTTTTCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTCGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCTTGTAATGCTTgcg                     <  1:338939/141‑1 (MQ=255)
                                                                                                                        ttAAATGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGGTGGCTTGTAATGCTTGCGCa                   >  1:641793/1‑141 (MQ=255)
                                                                                                                                    ttttCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAATTCTTTGATGTCTTGTAATTCTTGCGCAAGTTGTGCtctt       >  2:537039/1‑138 (MQ=255)
                                                                                                                                      ttCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCTTGTAATGCTTGCGCAAGTTGTGCTTTGGc     <  1:408576/141‑1 (MQ=255)
                                                                                                                                      ttCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCTTGTAATGCTTGCGCAAGTTGTGCTTTGGc     <  1:21124/141‑1 (MQ=255)
                                                                                                                                       tCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCTTGTAATGCTTGCGCAAGTTGTGCTTTGGCt    <  2:566538/141‑1 (MQ=255)
                                                                                                                                         cTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTTACTAAATCTTTGATGTCTTGTAATGCTTTCGCAAGTTTTGCttctgtttg  >  2:939286/1‑134 (MQ=37)
                                                                                                                                           |                                                                                                                                          
AAATCTTTGATGTCTTGCAATGCTTGTGCAAGTTGTGCTTTTGCCTGCTCAATTTCTTCTTTAGTCAGCGCATTGTTAATGTCGTTATGACCTTGTTGAAGTATTTGATTAATTCGATATTTAAGTGCTTGTTTTTCCTTATCTGTTAGATTTGGATTTTGATCGATTTCGTCAATTAAAGCTTGAACTTGTTTATCAACATCTTGTTTCGCATCTTCTTTAGCTTTCACTAAATCTTTGATGTCTTGTAATGCTTGCGCAAGTTGTGCTTTGGCTTG  >  USA300TCH1516_ALE/1472757‑1473034

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑