Predicted mutation
evidence seq id position mutation annotation gene description
RA CP000730 1,513,930 A→T L413F (TTA→TTT)  USA300HOU_1379 → hypothetical membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,513,9300AT100.0% 191.2 / NA 59L413F (TTA→TTT) USA300HOU_1379hypothetical membrane protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (34/25);  total (34/25)

TTAATTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACAAAATGA  >  CP000730/1513791‑1514071
                                                                                                                                           |                                                                                                                                             
ttAATTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATAGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTa                                                                                                                                      >  2:232262/1‑149 (MQ=255)
        tttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGattatt                                                                                                                              >  2:594604/1‑149 (MQ=255)
         ttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGAttatta                                                                                                                             <  2:325052/149‑1 (MQ=255)
         ttGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAAGAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGAttatta                                                                                                                             <  2:324925/149‑1 (MQ=255)
          tgtatgtaTCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAg                                                                                                                                     >  1:406641/1‑140 (MQ=255)
           gtatgtatCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAgg                                                                                                                                    >  1:522025/1‑140 (MQ=255)
                 atCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCatt                                                                                                                     >  2:365229/1‑149 (MQ=255)
                   cGCTTTATTAGTAGCCCTTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCattat                                                                                                                   <  2:171983/149‑1 (MQ=255)
                     cTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATg                                                                                                                          <  1:57921/140‑1 (MQ=255)
                     cTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                                                 >  2:410764/1‑149 (MQ=255)
                      tttATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTg                                                                                                                <  2:399337/149‑1 (MQ=255)
                         attaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCat                                                                                                                      >  1:316922/1‑140 (MQ=255)
                         attaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCat                                                                                                                      >  1:752363/1‑140 (MQ=255)
                         attaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCat                                                                                                                      >  1:801853/1‑140 (MQ=255)
                          ttaGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCatt                                                                                                                     >  1:381658/1‑140 (MQ=255)
                            agtagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCACCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATACCattat                                                                                                                   >  1:337531/1‑140 (MQ=255)
                              tagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATCTGTTTTATTGTATTAGGATTATTAATGCCATTAttt                                                                                                                 >  1:624047/1‑140 (MQ=255)
                              tagCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCa                                                                                                        >  2:450239/1‑149 (MQ=255)
                                     tGGCTTGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                          <  1:971753/140‑1 (MQ=255)
                                     agggaTGGGGTTTGTCTCTTGGAGAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCAATCATTATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTAt                                                                                                          <  1:283894/136‑1 (MQ=255)
                                      ggCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATc                                                                                                         >  1:21222/1‑140 (MQ=255)
                                       gcagtgggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTTGGGTGACAATTGTCATTATTTGGATTATCa                                                                                                        <  1:489514/135‑1 (MQ=255)
                                        cATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTg                                                                                              <  2:217746/149‑1 (MQ=255)
                                           ggggTTTGTTTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTa                                                                                                    <  1:257031/140‑1 (MQ=255)
                                           ggggTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTTATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTa                                                                                                    <  1:913852/140‑1 (MQ=255)
                                                   tctcTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAAtt                                                                                   >  2:26293/1‑149 (MQ=255)
                                                     tctTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGa                                                                                 <  2:437965/149‑1 (MQ=255)
                                                         ggATAAATCCTAAAAAAAATACTGCAAGAAAAGTACCACATCGCGTAAAAAGACCCGCATCTATATCACTCATAATATGTTTTATCGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTtata                                                                                      <  1:283780/140‑1 (MQ=255)
                                                         ggATAAAGCGTACAAAAAATACCGCAATAAAAGCACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTtata                                                                                      <  1:769497/140‑1 (MQ=255)
                                                           aTAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAAt                                                                                    <  1:1004503/140‑1 (MQ=255)
                                                                 cGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAAtt                                                                              <  1:951109/140‑1 (MQ=255)
                                                                   tACAAAAAATACTGCAATACAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTAGGATTATCCCTTATCCTTGTATTTATAATTGAATTaa                                                                            >  1:656854/1‑140 (MQ=255)
                                                                   tACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTaa                                                                            >  1:139787/1‑140 (MQ=255)
                                                                       aaaaaTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTaa                                                               >  2:224406/1‑149 (MQ=255)
                                                                       aaaaaTACTGCAATAAAAGTACCACATCGCGT‑AAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTATTTTAATGTTGAGTTGTATCACTTATCATTGTATTTATAATTGAATTAatataa                                                                       >  1:575881/1‑138 (MQ=255)
                                                                        aaaaTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtatta                                                                       <  1:104924/140‑1 (MQ=255)
                                                                        aaaaTAATGCGATGAAAGTACCACCTCGCGTAAAAAAACCAGCATCTATATCCCTCATCATATGTTTTATTGTAGTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAAtatta                                                                       <  1:66681/140‑1 (MQ=255)
                                                                           aTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTCTTTGCCACATCGCTTATCCTTGTATTTATAATTGAATTAATATtatat                                                                    >  1:941855/1‑140 (MQ=255)
                                                                           aTACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTAAATTAATATtatat                                                                    >  1:162146/1‑140 (MQ=255)
                                                                                   aTAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCCCTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGa                                                            <  1:570069/140‑1 (MQ=255)
                                                                                        aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGAtcgtc                                                       <  1:311913/140‑1 (MQ=255)
                                                                                        aGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAAGATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTAAATTAATATTATATATTAAAGAtcgtc                                                       >  1:570927/1‑140 (MQ=255)
                                                                                         gTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACa                                             <  2:221974/149‑1 (MQ=255)
                                                                                            ccACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGc                                                   >  1:145942/1‑140 (MQ=255)
                                                                                             cacaTCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACaataa                                         >  2:407524/1‑149 (MQ=255)
                                                                                                aTCGCTTAAAAAAACCAGCCTCTCTCTCACTCATAATATGTTTTGTTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATTTTAAAGATCGTCGTGCTaaa                                               <  1:709860/140‑1 (MQ=255)
                                                                                                aTCGCGTAAAACAACCAGCATCTATATCACTCATAATATGTTTTATTTTATTAGGGTTATTAATGCCATTATTAGGATTATCACTTATCCTTGTATTTAGAATTGAATAGATATTACATATGAAGGATCGTCGTACTaaa                                               <  1:744758/140‑1 (MQ=255)
                                                                                                   gcgTAAAAAAACCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTGGTGCTAAACAATAATGCACt                                   >  2:240325/1‑149 (MQ=255)
                                                                                                          aaaaCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATCTTATATATTAAAGATCGTCGGGCTAAAAAATAATGCa                                     >  1:451761/1‑140 (MQ=255)
                                                                                                             aCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACtt                                  <  1:117903/140‑1 (MQ=255)
                                                                                                             aCCAGCATCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATGATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAAAAATGCACTTAAAGttctc                         >  2:47680/1‑146 (MQ=255)
                                                                                                              ccAGCCTCTATATCACTCATAATATGTTTTATTGTATTAGGATTATTACTGCCATTATTTGGATTATCCTTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGACCTTa                                 >  1:400063/1‑140 (MQ=255)
                                                                                                                           cACTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGGCGTGCTAAACAGTAATGGACTTAAATTTTTGAAATGACGAAAtta           >  2:323105/1‑148 (MQ=255)
                                                                                                                             cTCATAATATGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTATACAATAATGCACTTAAAGTTTTGAACTGAc                  >  1:161268/1‑140 (MQ=255)
                                                                                                                                 taataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGaaa              <  1:445467/140‑1 (MQ=255)
                                                                                                                                  aataTGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATAGAATTAATATTATATACGAAATTTCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAAt             >  1:190444/1‑140 (MQ=255)
                                                                                                                                    tatGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATATTGCACTTAAAGTTTTGAACTGACGAAATTTACAAAATGa  >  2:218223/1‑149 (MQ=255)
                                                                                                                                     atGTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTa          >  1:159884/1‑140 (MQ=255)
                                                                                                                                       gTTTTATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAATTTTGAACTGACGAAATTTACa        >  1:63394/1‑140 (MQ=255)
                                                                                                                                           |                                                                                                                                             
TTAATTTATTTGTATGTATCGCTTTATTAGTAGCCATTGGCATGGGGTTTGTCTCTTGGATAAAGCGTACAAAAAATACTGCAATAAAAGTACCACATCGCGTAAAAAAACCAGCATCTATATCACTCATAATATGTTTAATTGTATTAGGATTATTAATGCCATTATTTGGATTATCACTTATCCTTGTATTTATAATTGAATTAATATTATATATTAAAGATCGTCGTGCTAAACAATAATGCACTTAAAGTTTTGAACTGACGAAATTTACAAAATGA  >  CP000730/1513791‑1514071

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: ‑