Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,420,667 G→T 9.5% intergenic (+98/‑264) ssaA → / → USA300HOU_2286 secretory antigen SsaA/(R)‑2‑hydroxyacid dehydrogenase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,420,6670GT 9.5% 243.6 / 6.8 90intergenic (+98/‑264)ssaA/USA300HOU_2286secretory antigen SsaA/(R)‑2‑hydroxyacid dehydrogenase
Reads supporting (aligned to +/- strand):  ref base G (28/52);  new base T (8/2);  total (36/54)
Fisher's exact test for biased strand distribution p-value = 1.27e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTCTGCAAGTGAAGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATAGTTCTAC  >  CP000730/2420527‑2420807
                                                                                                                                            |                                                                                                                                            
ttCTGCAAGTGAAGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTCTAGGAGAAGCTCTTTTTTTg                                                                                                                                              >  1:262400/1‑141 (MQ=255)
ttCTGCAAGTGAAGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTg                                                                                                                                              >  2:1025698/1‑141 (MQ=255)
   tGCAAGTGAAGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCtt                                                                                                                                           >  1:130993/1‑140 (MQ=255)
   tGCAAGGGAAGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTa                                                                                                                                           <  2:412119/141‑1 (MQ=255)
     cAAGTGAAGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTAtt                                                                                                                                         <  2:130993/141‑1 (MQ=255)
       attGAAGCAGGTAACTACAACTACAACCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACAAAAAAAAAAAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTAtttt                                                                                                                                       <  2:93915/139‑1 (MQ=255)
           aaGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCgg                                                                                                                                   <  2:187367/141‑2 (MQ=255)
           aaGCAGGTAACTACAACTACAACCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTAAAAAAAAAAAAAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGt                                                                                                                                   <  2:972826/141‑1 (MQ=255)
            aGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGtt                                                                                                                                  >  1:1084803/1‑141 (MQ=255)
            aGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATAAAAAAAATTTAGGATTACCTTGATAGGAGAAGCTCTTTTTTTGCTATTTTTCGtt                                                                                                                                  >  2:499912/1‑141 (MQ=255)
            aGCAGGTAACTACAACTACATAACAAAGTGAGATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGtt                                                                                                                                  >  1:1098099/1‑141 (MQ=255)
               aGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGcc                                                                                                                               >  1:389504/1‑141 (MQ=255)
               aGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGcc                                                                                                                               >  1:564278/1‑141 (MQ=255)
                 gTAACTACAACTCCATCCAGTTTTAATAATAACACTATGATACATATTGTCTTGAAACTTAATTCTAGTACATATTTCATCAAAAACCTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCAc                                                                                                                             <  2:723804/141‑1 (MQ=255)
                 gTAACTACAACTCAATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCAc                                                                                                                             <  2:128752/141‑1 (MQ=255)
                 gTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTTTCTTGAATCTTAATTCTAGTACATACGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCAc                                                                                                                             <  2:547482/141‑1 (MQ=255)
                 gTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCAc                                                                                                                             <  2:1095103/141‑1 (MQ=255)
                    actacaactacaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCGACCTa                                                                                                                          <  2:1018726/141‑1 (MQ=255)
                     cttcaactacaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTAc                                                                                                                         <  2:683793/138‑1 (MQ=255)
                     ctacaactacaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTAc                                                                                                                         <  2:408995/141‑1 (MQ=255)
                      tacaactacaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTAGTTGCCAcctcct                                                                                                                        >  1:1047612/1‑141 (MQ=255)
                         aactacaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTGTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACttat                                                                                                                     <  1:506735/141‑1 (MQ=255)
                          actacaTCCATATTTAATATCTTGCTGATTATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTTCTATTTTTCTTTGCCACCTGCttatt                                                                                                                    >  2:1068352/1‑141 (MQ=255)
                          actacaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGTTATTTTTTGTTGCAACCGACttatt                                                                                                                    >  2:100733/1‑141 (MQ=255)
                            tacaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAGACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAACTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCATTGCCACCTACttattta                                                                                                                  >  2:198144/1‑141 (MQ=255)
                             acaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGTTTTTTTTTGTTGCCACCTACttattttt                                                                                                                 >  2:996139/1‑139 (MQ=255)
                             acaTCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACttatttat                                                                                                                 <  2:798412/141‑1 (MQ=255)
                                    tatTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTtcct                                                                                                          <  1:160267/141‑1 (MQ=255)
                                     atTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTtcctc                                                                                                         <  2:978339/141‑1 (MQ=255)
                                     atTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTtcctc                                                                                                         <  1:970408/141‑1 (MQ=255)
                                        tAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCa                                                                                                      <  1:492659/141‑1 (MQ=255)
                                        tAACATAAACGCGAGGATAGATATGTTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCa                                                                                                      <  1:865310/141‑1 (MQ=255)
                                           tataAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTTTTTTTTTTCGTTGCTACCTACTTATTTATATTTCTTCTCattt                                                                                                   >  2:735125/1‑139 (MQ=255)
                                           tataAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCatat                                                                                                   >  2:26733/1‑141 (MQ=255)
                                            ataAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCACCCATAtt                                                                                                  >  1:560131/1‑141 (MQ=255)
                                               aaCACGATGATACATATTTCCGTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTCTAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCaa                                                                                               <  2:999788/141‑1 (MQ=255)
                                               aaCACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTGGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCaa                                                                                               >  1:478191/1‑141 (MQ=255)
                                                 cacGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCaaaa                                                                                             >  2:36435/1‑141 (MQ=255)
                                                   cGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAata                                                                                           <  1:645322/141‑1 (MQ=255)
                                                    gatgatACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAatat                                                                                          <  2:354501/141‑1 (MQ=255)
                                                    gatgatACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAatat                                                                                          <  2:100984/141‑1 (MQ=255)
                                                       gatACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTaa                                                                                       <  1:476943/141‑1 (MQ=255)
                                                        atACATATTGTCTTGAAAATCGACACTAGGACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCCAAATATTAAt                                                                                      >  1:265585/1‑141 (MQ=255)
                                                          agcttgtGTCTGGAAACGTGAGTCGAGGACATCTGTCATCAAAAAACTGGGGTCGTTCCTTTATAGGAGAAGCTCTTTGTTTGCTATTTTTCGTTGCCACCTACTTACTTATATTTCCTCCCATATTCAAAATATTAAttt                                                                                    <  2:985925/135‑1 (MQ=255)
                                                          aCATATTGTCTTGATACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAAttt                                                                                    <  2:905699/141‑1 (MQ=255)
                                                          aCATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTTTTTTTTTTTTTTGCCAACTACTTATTTCTATTTCTTCCCGTTTTCAATTTGTTAAttt                                                                                    >  2:492504/1‑141 (MQ=255)
                                                               ttGTCTTGAAGCTTAATTCTAGGACATATGTCATCAAAAAACTTTGAGCCTTCCTTTATAGGAGAAGCTCTTTTTTTGCCATTGTTCGTTGCCACCTACTTAGTTATCTTTCCTCCCATATTCACAATATTAATTTTTTCt                                                                               <  2:349734/141‑1 (MQ=255)
                                                                 gTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTaa                                                                             <  1:1011552/141‑1 (MQ=255)
                                                                 gTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTaa                                                                             <  1:454450/141‑1 (MQ=255)
                                                                   cTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATa                                                                           >  1:327561/1‑141 (MQ=255)
                                                                          cTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTaa                                                                    >  1:675341/1‑141 (MQ=255)
                                                                              aTTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTCTAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTCCTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACttt                                                                <  1:136571/141‑1 (MQ=255)
                                                                                   aGTACATATGTCATCAAAAAATTTTGAGCTTTTCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTGTTTATATTGCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAAc                                                           <  2:332689/141‑1 (MQ=255)
                                                                                   aGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTAGAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACCTTAAAAc                                                           >  2:263428/1‑141 (MQ=255)
                                                                                           tGTTATCAAAAAACTTTGAGCTTTTCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTAt                                                   <  2:820968/141‑1 (MQ=255)
                                                                                           tGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTAt                                                   <  1:568955/141‑1 (MQ=255)
                                                                                           ggTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTAt                                                   <  1:581586/140‑1 (MQ=255)
                                                                                             tcatcaAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCt                                                 >  1:785311/1‑141 (MQ=255)
                                                                                                tcaAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATCTTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCtaat                                              >  1:164060/1‑141 (MQ=255)
                                                                                                tcaAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCtaat                                              <  1:36435/141‑1 (MQ=255)
                                                                                                  aaaaaaCTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTTCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCtaattt                                            <  2:966406/141‑1 (MQ=255)
                                                                                                     aaaCTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCtaatttaat                                         >  2:883414/1‑141 (MQ=255)
                                                                                                      aaCTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTTTTTTTTTTTTTTGCCACATACTGATTTATATTTACTTCCATATTTAAGGTATTAATTTTTTCGAATACTCGTACTTTTAACACAAAATTATCtaatttcatt                                        >  2:1072716/1‑141 (MQ=255)
                                                                                                      aaCTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCtaatttaatt                                        <  2:293613/141‑1 (MQ=255)
                                                                                                            gAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCa                                  <  1:1110164/141‑1 (MQ=255)
                                                                                                               cTTTCCTTTATAGGAGAAGCTCTTTTTTTTTTTTTTTTTTTTGCAACCTACTTATTTATATTTCCTCGCGTCTTCAAATTATTAATTATTTCGATTCCTATTACCTTTAATATTACGTTCTTTAATTTAATTGACCTAGtt                               >  2:635825/1‑141 (MQ=255)
                                                                                                                 ttCCTTTTTATGAGAAGCTCGTTTTTTGCTATTTTTCGTTTCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGtttt                             <  2:10017/141‑1 (MQ=255)
                                                                                                                 ttCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGtttt                             <  1:458565/141‑1 (MQ=255)
                                                                                                                   ccTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTACTTTAATTGATCCAGTTTTTc                           <  1:673963/141‑1 (MQ=255)
                                                                                                                   ccTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTc                           <  1:222360/141‑1 (MQ=255)
                                                                                                                    cTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTcc                          <  1:26733/141‑1 (MQ=255)
                                                                                                                      ttATCGTAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCcac                        <  1:1025698/141‑1 (MQ=255)
                                                                                                                      ttATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCcac                        >  1:456757/1‑141 (MQ=255)
                                                                                                                      ttATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCcac                        >  1:709659/1‑141 (MQ=255)
                                                                                                                      ttATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCcac                        <  2:262400/141‑1 (MQ=255)
                                                                                                                         aaGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACAtt                     <  1:134825/140‑1 (MQ=255)
                                                                                                                             agaAGCTCTTTTTTTTTTTTTTTTTCTTGCCACAAACTGACTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTCTTAACTCTTAAACTACGTAATCTACTTTAATTGTTTCATTTTTTCCACATTACaa                 >  2:519681/1‑141 (MQ=255)
                                                                                                                             agaAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTCTCTTTGCTCCCCTCTTCAGACTATTGATTTTTTCTAATACTATTTATTTTATAACTACGTTATCTTATTTACTTTATCCCGtttttatacgtttcaa                 >  2:152150/1‑130 (MQ=255)
                                                                                                                             agaAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACaa                 >  2:50623/1‑141 (MQ=255)
                                                                                                                                  ctctTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTc            <  1:225129/141‑1 (MQ=255)
                                                                                                                                  ctctTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTc            <  1:70655/141‑1 (MQ=255)
                                                                                                                                   tctTTTTTTTCTATTTTTCCTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCa           <  1:117917/141‑1 (MQ=255)
                                                                                                                                   tctTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCa           <  2:976642/141‑1 (MQ=255)
                                                                                                                                   tctTTTTTTGCTATTTTTCGTTGCCACATCCTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCa           >  1:1096868/1‑141 (MQ=255)
                                                                                                                                    ctTTTTTTTTTTTTTTTTGTTGCCACCTACTTATTTATATTTCCTCTCGTATTCTAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTTTTTTTTTTATTTTTTCCAGTTTTTCCACATTTCAGTTTTCAt          >  2:683311/1‑141 (MQ=255)
                                                                                                                                    ctTTTTTTTCTATTTTTCATTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATGTTAATTTTTTCTACTACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAATTTTTCCACATTACAATATTCAt          >  2:617352/1‑141 (MQ=255)
                                                                                                                                     tttttttGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATa         <  1:959086/141‑1 (MQ=255)
                                                                                                                                     tttttttGCTATTGTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATa         <  2:230793/141‑1 (MQ=255)
                                                                                                                                        ttttGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATAGtt      <  1:1099715/141‑1 (MQ=255)
                                                                                                                                        ttttGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACCTTATAACGACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATAGtt      <  1:208259/141‑1 (MQ=255)
                                                                                                                                         tttGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATAGTTc     >  1:729723/1‑141 (MQ=255)
                                                                                                                                           tGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATAGTTCTa   >  1:122039/1‑141 (MQ=255)
                                                                                                                                            gCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTAATATTTCTat  >  2:92702/1‑140 (MQ=255)
                                                                                                                                            |                                                                                                                                            
TTCTGCAAGTGAAGCAGGTAACTACAACTACATCCATATTTAATATAAACACGATGATACATATTGTCTTGAAACTTAATTCTAGTACATATGTCATCAAAAAACTTTGAGCTTTCCTTTATAGGAGAAGCTCTTTTTTTGCTATTTTTCGTTGCCACCTACTTATTTATATTTCCTCCCATATTCAAAATATTAATTTTTTCTAATACTATTAACTTTAAAACTACGTTATCTAATTTAATTGATCCAGTTTTTCCACATTACAATATTCATAGTTCTAC  >  CP000730/2420527‑2420807

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: