Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 111,516 C→A 27.7% Q196K (CAA→AAA)  USA300HOU_0110 → possible staphylococcal tandem lipoprotein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730111,5160CA27.7% 82.2 / 28.1 56Q196K (CAA→AAA) USA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base C (23/16);  new base A (7/8);  total (32/24)
Fisher's exact test for biased strand distribution p-value = 5.43e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01

GAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAA  >  CP000730/111378‑111650
                                                                                                                                            |                                                                                                                                        
gAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTaaa                                                                                                                                       >  2:95835/1‑141 (MQ=255)
    aaGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATGCCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATc                                                                                                                                   >  1:568223/1‑141 (MQ=255)
     aGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGTGTGAAAGAGAGCATGTAGACCAGATGGGCCGAGCTATTCGGCTAAATATCa                                                                                                                                  >  1:138481/1‑141 (MQ=21)
     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                                                                                                                    >  2:273184/1‑141 (MQ=255)
                   aCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAatgatg                                                                                                                    <  1:506655/141‑1 (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)
                                                                                                                                            |                                                                                                                                        
GAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAA  >  CP000730/111378‑111650

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: