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% 82.2 / 30.3 58S194S (TCA→TCG) USA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (18/23);  new base G (11/5);  total (29/29)
Fisher's exact test for biased strand distribution p-value = 1.41e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAA  >  CP000730/111374‑111650
                                                                                                                                          |                                                                                                                                          
tACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGc                                                                                                                                          <  1:219916/141‑1 (MQ=255)
   tGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGTAAACTTTATGTTTTTTGCGCAATATTGCAATCTTAAAGATTTAATGAATTATAAAGATGGATATATATCATATACTCCAGAGTTTCTGAGTTAGTCAGCTCa                                                                                                                                       <  2:112711/141‑1 (MQ=21)
     cggAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTACGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAat                                                                                                                                     <  1:251681/140‑1 (MQ=255)
     aGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAat                                                                                                                                     <  1:54885/141‑1 (MQ=255)
          gTTAAGAAAGAAAACATACAACAAGAAATCGCAAACTTTAGGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCaa                                                                                                                                >  1:263751/1‑141 (MQ=25)
               agaagaAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAAc                                                                                                                           <  1:25292/141‑1 (MQ=255)
                   gaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAat                                                                                                                       <  1:24316/141‑1 (MQ=255)
                   gaaAACATAAAAAAAGAAATCGAAAAATTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCAAGAGGTGTCGAGTTATTCGGATAAATATCAATTAACTatt                                                                                                                       >  2:308601/1‑139 (MQ=18)
                    aaaaCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAatg                                                                                                                      >  2:240424/1‑141 (MQ=255)
                      aaCATAAAAAAAGAAATCGAAAACTTTAAGTTTTGTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTTAGCTCAATGTCAATTAACTAatgat                                                                                                                    >  1:108970/1‑141 (MQ=255)
                       aCATAAATAAAGAAATGTAAAACTTTAAGTGTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAatgatg                                                                                                                   <  2:226818/141‑1 (MQ=17)
                       aCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTGAGCTCAATATCAATTAACTAatgagg                                                                                                                   >  2:211897/1‑139 (MQ=255)
                       aCATAAAAAAAGAAATCGAAAAATTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAAAGGTGCCGAATTATTCAGTTCAATATCAATTAACTAatgatg                                                                                                                   >  2:72081/1‑141 (MQ=255)
                         aTAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATgatgat                                                                                                                 >  2:340358/1‑141 (MQ=255)
                         aTAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATgatgat                                                                                                                 >  2:298262/1‑141 (MQ=255)
                         aTAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATgatgat                                                                                                                 >  1:306779/1‑141 (MQ=255)
                          tAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAtt                                                                                                                <  1:15582/141‑1 (MQ=255)
                          tAAAAAAAGAAATCCAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAtt                                                                                                                <  2:80446/141‑1 (MQ=255)
                          aaaaaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGAtt                                                                                                                <  2:80513/140‑1 (MQ=255)
                            aaaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATtat                                                                                                              >  2:272998/1‑141 (MQ=255)
                            aaaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATAAATTAACTAATGATGATtat                                                                                                              >  2:241840/1‑141 (MQ=255)
                            aaaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAACATTTAAGGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTACTCAGCTCAATATCAATTAACTAATGATGATtat                                                                                                              <  2:236981/141‑1 (MQ=255)
                            aaaaaaGAAATCGAAAACTTTAAGTTCTTTGCGGAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATtat                                                                                                              <  2:251005/141‑1 (MQ=255)
                             aaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATtata                                                                                                             <  1:300771/141‑1 (MQ=255)
                                   aaaTCGAAATCTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTaa                                                                                                       <  1:92677/141‑1 (MQ=255)
                                     aTCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTaaaa                                                                                                     >  2:22816/1‑141 (MQ=255)
                                       cGAAAACTCTAAGTTTTTTTTGTTTTTTAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGGCGAGTTATTAAGCTCAATATCAATTTACTAATGATGTTTATAATTTaaaaaa                                                                                                   >  2:25521/1‑139 (MQ=21)
                                        gAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAAGGCCCGATTTATTCGTCGAACTATCAATTAACTAATGATGATTCTAATGTAAAACaa                                                                                                  >  2:267889/1‑141 (MQ=18)
                                         aaaaCTTTAAGTTTTTTGCGCAATATAGCAGTTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGACTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGCAAAACAAt                                                                                                 <  2:263751/141‑1 (MQ=255)
                                         aaaaCTTTAAGTTTTTTGCGCAATAAAGCAAGTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAt                                                                                                 <  1:31480/141‑1 (MQ=255)
                                            aCTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGGATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATAAc                                                                                              >  2:191069/1‑141 (MQ=255)
                                             cTTCAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGACTTATTAAGCTGGAGATATATCATCTAACCCAGAGGTGCCGAGTTCTTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACg                                                                                             >  2:75806/1‑141 (MQ=17)
                                                tAAGTTTTTTGCGCAATATAGCAATTATAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTaa                                                                                          <  1:356013/141‑1 (MQ=255)
                                                  aGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCaaaa                                                                                        >  1:60687/1‑141 (MQ=255)
                                                     tttgtgagtaaTATAGGAATTTTAAAGATTTAAAGAATTATAAAGATGGAGCTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATGAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGat                                                                                     <  1:109851/132‑1 (MQ=17)
                                                          tttttttttttcAATATTAAAAATTTAATGAATTTTATAGAGGGGGATGTATCATATAATCCAGGTGTTCCGAGTTATTGAGTTTTTTTTTTTTTTTCTAATGATGATTATAATGTAAAACATTTACGTAATACATATGaa                                                                                >  2:355477/12‑140 (MQ=9)
                                                           cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCAAATGGTCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATACGata                                                                               <  1:244243/141‑3 (MQ=14)
                                                             cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATa                                                                             <  1:283242/141‑1 (MQ=255)
                                                                          ttAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAg                                                                <  1:278880/141‑1 (MQ=255)
                                                                            aaaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACTTACCAACAAATAAAgcg                                                              >  2:322048/1‑141 (MQ=255)
                                                                               gATTTAATTAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCg                                                           <  1:61784/141‑1 (MQ=255)
                                                                               gATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTCATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAGTACGTAAAAGATATGACATACTAACAAATAAAGCGCCg                                                           <  1:200107/141‑1 (MQ=255)
                                                                                    aaTGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCt                                                      <  1:220926/141‑1 (MQ=255)
                                                                                                 gATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGt                                         <  2:33808/141‑1 (MQ=255)
                                                                                                 gATGGAGATATATCATATAAGCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGt                                         <  1:156640/141‑1 (MQ=255)
                                                                                                          atatCATATAATCCAGAGGGGGCGAGTTACTCTGATTTTTCGCATCTTCCAAATTATGATTATAATGTAAAACAATTACGTTAAAGATATGACATACCGACGAATTAAGCGCCTAAGCTGTTGTTGTGAGGTACAGGGAAt                                <  2:108970/141‑1 (MQ=9)
                                                                                                                   aaTCCAGAGGTGCCGAGTTACTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGt                       <  1:22201/141‑1 (MQ=255)
                                                                                                                    aTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGTTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                      >  1:281593/1‑141 (MQ=255)
                                                                                                                        agagGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGCATTTAAAAGGTtcatc                  >  2:14696/1‑141 (MQ=255)
                                                                                                                        agagGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcctc                  >  2:244545/1‑141 (MQ=255)
                                                                                                                        agagGTGCCGAGTTATTCAGCTCAATATCAATTAAATAATGATGATAATAATATCAAACAAAAACGTAAAAGATATAAAATACAAACAAATAAACCGCCGAAGCCGTTGTTGAAAGGCACAAGGAATGCAAAAAGatcatc                  >  2:335666/1‑141 (MQ=255)
                                                                                                                          agGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAg                >  1:73147/1‑141 (MQ=255)
                                                                                                                           ggTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGAGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTGAACAGGCTCATCAGt               >  1:327309/1‑141 (MQ=255)
                                                                                                                               ccGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGa           >  2:235965/1‑141 (MQ=255)
                                                                                                                                 gAGTTATTCAGCTCAATATCAATTAACTAATGACGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGata         >  2:236319/1‑141 (MQ=255)
                                                                                                                                 gAGTTATTCAGCTCAATATCAATTAACTAATGAAGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGata         <  1:135502/141‑1 (MQ=255)
                                                                                                                                        tCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGCTATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaaaa  >  2:69418/1‑141 (MQ=255)
                                                                                                                                        tCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGTTACAGGGAATTTAAAAGGTTCATCAGTTGGATATaaaaaa  >  2:69453/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                          
TACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAAA  >  CP000730/111374‑111650

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: ‑