Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 111,512 A→G 28.0% S194S (TCA→TCG USA300HOU_0110 → possible staphylococcal tandem lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730111,5120AG28.0% 80.2 / 35.4 60S194S (TCA→TCGUSA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (24/18);  new base G (9/7);  total (34/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.05e-01

CTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAA  >  CP000730/111373‑111650
                                                                                                                                             |                                                                                                                                            
cTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAg                                                                                                                                             <  1:272559/141‑1 (MQ=255)
 tACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGc                                                                                                                                            >  1:500760/1‑141 (MQ=255)
  aCTGAGGAAGTTAAAGAAGAAAATATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCt                                                                                                                                           <  1:75998/141‑1 (MQ=255)
     gAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTaaa                                                                                                                                       >  2:95835/1‑141 (MQ=255)
         aaGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATGCCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATc                                                                                                                                   >  1:568223/1‑141 (MQ=255)
          aGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGTGTGAAAGAGAGCATGTAGACCAGATGGGCCGAGCTATTCGGCTAAATATCa                                                                                                                                  >  1:138481/1‑141 (MQ=21)
          aGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCacccccctatca                                                                                                                                   >  2:580148/1‑130 (MQ=255)
          aGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCa                                                                                                                                  >  2:233580/1‑141 (MQ=255)
             tAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTTCGCATTATAGCAATTATAAAGAGTTAATGAATTATAAAGATGGAGATATATCATATAATCTAGGGGTTCCGAGTTATTCAGCTCAATATAAAtt                                                                                                                               >  2:357677/1‑141 (MQ=21)
              aaaagagaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTGTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGGCCCGAGTTACTCGGCTAAATATCAATTa                                                                                                                              <  2:558601/136‑1 (MQ=17)
              aaaGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTa                                                                                                                              <  2:304687/141‑1 (MQ=255)
               aagaagAAAACATAACAAAAGAAATCGCAAACTTTACGTTTTTTGCGCGATAATAATCGGTTTTTCAG‑‑TAAATGAATTATAAAGTTGGTCTTTTAGCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTaa                                                                                                                             <  2:430621/141‑1 (MQ=16)
                 gaagaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACt                                                                                                                           <  2:500760/141‑1 (MQ=255)
                  aagaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTa                                                                                                                          <  1:350757/141‑1 (MQ=255)
                    gaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAat                                                                                                                        <  1:169295/141‑1 (MQ=255)
                     aaaaCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGCAGTGCCGAAGTATGCAGCTCAATATCAATTAACTAata                                                                                                                       >  2:457125/1‑140 (MQ=21)
                       aaCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCCGAGGTGCCGAGTTATTCGGCTAAATATAAATTAACTAatgat                                                                                                                     >  1:14870/1‑141 (MQ=255)
                        aCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAatgatg                                                                                                                    <  1:506655/141‑1 (MQ=255)
                        aCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAatgatg                                                                                                                    >  2:273184/1‑141 (MQ=255)
                         cATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAAtgatga                                                                                                                   >  1:496227/1‑141 (MQ=255)
                             aaaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATtat                                                                                                               <  2:326923/141‑1 (MQ=255)
                                aaaGAAATCGAAAACTTTAAGTTTTTTTTTTTTTTTTTCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAAt                                                                                                            >  2:568601/1‑141 (MQ=17)
                                   gAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTa                                                                                                         <  2:459280/141‑1 (MQ=255)
                                    aaaTCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAAATCTTGATGATTATAATGTaa                                                                                                        <  2:308829/141‑1 (MQ=18)
                                       acGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAAc                                                                                                     <  2:200191/140‑1 (MQ=255)
                                        cGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACa                                                                                                    >  1:123301/1‑141 (MQ=255)
                                         gagtgcTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACaa                                                                                                   >  2:527655/6‑141 (MQ=255)
                                         gAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAACCCAGAGGCGCCGAGTTAGACGGCGAAATATCAATTAACTAATGATGATTATAATGTAAAACaa                                                                                                   <  2:431406/141‑1 (MQ=17)
                                         gAAAACTTTAAGTTTTTCGCGCAATATAGCAACATTAAAGATTTAATGAATTATAAAGATGGAGATATATCATCTAATCCAGAGGTGCCGAGTTATTCAGCTCAATACAAATTCCCTACTGATGATTATAATGTAAACCaa                                                                                                   >  2:580929/1‑141 (MQ=18)
                                              ctgtAAGGTTTTTGCGCAATATAGCAATTTTGAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCGCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACg                                                                                              <  2:51693/138‑1 (MQ=255)
                                                  aaGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaa                                                                                          <  1:219038/141‑1 (MQ=255)
                                                  aaGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTaaa                                                                                          >  2:307410/1‑141 (MQ=255)
                                                     ttttttGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGa                                                                                       >  1:457985/1‑141 (MQ=255)
                                                         ttGCGCAATATAGCACTTTTAAAGATCTAATGAACTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCTGCTAACTATCAATAAACTAATGATGATTATAATGTAATACAATTACGCAAAAGATATg                                                                                   <  1:372149/141‑1 (MQ=17)
                                                          ttttttttttttttcAATTTTAAAGAGGAAATGAATTTTACAGATGGAGATATATCATATAATCCAGAGGTGCCGCGTTATTCAGCTTATTTTCTTTTATTTATTGATGTTACTTCGGTAAAACAATTACGATAAAGacat                                                                                    >  2:581081/15‑141 (MQ=9)
                                                           gcgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGaa                                                                                 >  1:482008/1‑140 (MQ=255)
                                                              cattataGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACATTTCCGTAACAGATATTACAtt                                                                              >  2:180524/4‑140 (MQ=18)
                                                              cAATATAGCAATTTTAAAGCTTTAATGCATTATAAAGATAGAGATATATCATATAATCCGGATGTGCCTATTTATTCGACTAACTATCAATTAACTAATGATGATTGTCATCTAAAAAAATTAAGCAACatatattatatc                                                                              >  2:174081/1‑135 (MQ=9)
                                                              cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATa                                                                              >  2:58867/1‑141 (MQ=255)
                                                                ttttttttcAATATTAAAGAGTTAATGAATTTTAAAGATGGAGATAGATCATATAATCCAGAGGTGCCGAGTTATTTTTCTTTTTATCTATTAACTAATGATGATTATAATATAAAACAATTACGTAAAAGGTATGACATa                                                                              >  2:374068/9‑141 (MQ=17)
                                                                atatAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAAATATGATATAcc                                                                           >  2:409294/1‑141 (MQ=14)
                                                                       gCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATGCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATTATGATGATAATGTAAAACAATTACGTAAAAGATATGACATACcaacaa                                                                      >  1:318573/1‑141 (MQ=255)
                                                                              tAAAGATTTAATGAATTATAAAGATGGATATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgc                                                               <  1:348577/141‑1 (MQ=255)
                                                                                aaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgcgc                                                             >  1:40986/1‑141 (MQ=255)
                                                                                       aaTGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCt                                                      <  2:406040/141‑1 (MQ=255)
                                                                                        aTGAATCATCAAGATGGAGATATATCATATAATCCACAGGTGCCAAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtg                                                     <  1:14333/141‑1 (MQ=255)
                                                                                              tataAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTCTGCACTCGAATAGCAAGTAACTAATGATGATTATAATGTCAAACAATTACGTCAAAGATATGACATACCAACAAATAAAGCGCCGAAGCtgttgtgg                                               >  2:68837/1‑139 (MQ=17)
                                                                                                   aGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAgg                                          <  1:233580/141‑1 (MQ=255)
                                                                                                        gagaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAg                                     >  2:577454/1‑141 (MQ=255)
                                                                                                         agaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAgg                                    >  1:502760/1‑141 (MQ=255)
                                                                                                              tatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAtt                               <  1:273184/141‑1 (MQ=255)
                                                                                                               atCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTACATCATGCATATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAAttt                              <  1:416476/141‑1 (MQ=17)
                                                                                                                   tataATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTaaaa                          >  2:375369/1‑141 (MQ=255)
                                                                                                                      aaTTCAGAGGGGGCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACACTTCTGGCGAAGAGATGAATGCTGAACGGAGAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGt                       <  1:293812/141‑1 (MQ=12)
                                                                                                                        tCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtc                     <  1:527655/141‑1 (MQ=255)
                                                                                                                         ccAGAGGAGCCGAGTTATTCAGCTCAACATCAAATAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca                    <  2:399062/141‑1 (MQ=255)
                                                                                                                               gTGCCGAGTTATTCAGCTCAATATCAATCAACTAATGATGATTATACTGAAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGtt              >  2:128778/1‑141 (MQ=255)
                                                                                                                                tGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTGTAATGTAAAACAATTACGTAAAAGATATGACATACCGACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTg             >  1:517505/1‑141 (MQ=255)
                                                                                                                                  ccGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAACGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGa           >  1:224273/1‑141 (MQ=255)
                                                                                                                                         aTTCAGCTCAATATCAAGTAACTAATGATAATTATAATGTAAAACAATTACGTAGTAGATATGACATACCAACAAGTAAAGCGCCGAAGCTGTTGGGGGGCGATCCAGGGAACGTAAGATGTTGATCCGTGGGATAGaaaa    >  2:578794/1‑141 (MQ=12)
                                                                                                                                           tCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCAACAGTTGGATATaaaaaa  >  1:530392/1‑141 (MQ=255)
                                                                                                                                             |                                                                                                                                            
CTACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAA  >  CP000730/111373‑111650

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: