Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 111,512 A→G 27.7% 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
*CP000730111,5120AG27.7% 55.0 / 18.3 39S194S (TCA→TCG) USA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (15/13);  new base G (6/5);  total (21/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.80e-01

ACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATAT  >  CP000730/111375‑111644
                                                                                                                                         |                                                                                                                                    
aCTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCt                                                                                                                                   <  1:23149/141‑1 (MQ=255)
 cTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCAAGAGGTGCCGAGTTATTCAGCTc                                                                                                                                  >  1:246839/1‑141 (MQ=255)
     ggAAGGTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTAAgatattca                                                                                                                              <  2:74448/141‑8 (MQ=255)
          ttAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTTTTTTTTTTACCAATTCAAAAGATTTAATGAATTATAAAGATGGAGATATAACATATAATCCAGACATGCCGAGTTATTCAGCTCAATATaaaa                                                                                                                         >  2:186096/1‑140 (MQ=18)
            aaaGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTa                                                                                                                       <  1:273332/141‑1 (MQ=255)
            aaaGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTa                                                                                                                       >  1:165243/1‑141 (MQ=255)
              agaagaAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAAc                                                                                                                     <  2:212722/141‑1 (MQ=255)
                     aaCATAAAAAAAGAAATCGAAAACTTTAAGTTTGTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAatgat                                                                                                              <  2:230374/141‑1 (MQ=255)
                        aTAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATgatgat                                                                                                           >  1:280794/1‑141 (MQ=255)
                        aTAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATATTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTGGGCTAAATATCCATTAACTAatgatgtt                                                                                                           >  2:237465/1‑139 (MQ=17)
                         tAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGAtt                                                                                                          >  2:65947/1‑141 (MQ=255)
                            aaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATtata                                                                                                       <  2:94818/141‑1 (MQ=255)
                                 gAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTa                                                                                                  >  1:87504/1‑141 (MQ=255)
                                         aaaCTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAtt                                                                                          >  2:205573/1‑141 (MQ=255)
                                          aaCTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGACGAGTTATTCAGCTCAATATAAATTAAGTAATGATGATTATAATGTAAAAAAATTa                                                                                         >  1:205834/1‑141 (MQ=255)
                                                 aGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATAATAAAGTTGGATATATATCATATAATCCAGATGTGCCGTGTTATTCGTCTTAATATCAATTAACTAATGATGATTATAATTGTAAACAATTAAGCaaaa                                                                                  >  2:172315/1‑141 (MQ=17)
                                                          cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGata                                                                         <  1:239978/141‑3 (MQ=255)
                                                           tttttttaGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCTGAGGTTCCGAGTTATTCAGCTTAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGAAAt                                                                        >  2:249710/7‑141 (MQ=18)
                                                           ccAATACAGCAATTTTAAAGATTGAATGAATTATAAAGATGGAGATATAGCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACAt                                                                        <  1:238420/140‑1 (MQ=255)
                                                            tattttttcAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                                       >  2:35195/9‑141 (MQ=14)
                                                            gaagttaGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGAtata                                                                       <  1:112888/136‑1 (MQ=14)
                                                            cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATa                                                                       >  1:48700/1‑141 (MQ=255)
                                                            cAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGATGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACACTTACGCAAAAGATATGAtata                                                                       >  2:162939/1‑141 (MQ=17)
                                                                    cAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAGATATGATATAccgacgag                                                               <  1:272075/141‑7 (MQ=11)
                                                                      aTTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATa                                                             <  1:235006/141‑1 (MQ=255)
                                                                           aaaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGAGATACCAACtaataaggtg                                                        >  1:170815/1‑137 (MQ=255)
                                                                           aaaGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgcg                                                        >  1:52846/1‑141 (MQ=255)
                                                                            aaGATTTAATGAATTATAAAGAAGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAgagc                                                       >  2:158638/1‑141 (MQ=255)
                                                                                tttAATGAAATATAAAGATAGAGATACATCATATAATCGTAAGCGGCTGATTTATACAGCTCCATATCAATTAACTAGTGATGATTATAATGTAAAACAATTACGTAAAATATATGACATCCCAACGAATATAGCGCCgca                                                   <  2:31356/141‑3 (MQ=18)
                                                                                                gATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGt                                   >  2:264193/1‑141 (MQ=255)
                                                                                                       atatatCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGa                            >  2:86735/1‑141 (MQ=255)
                                                                                                                  aaTCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATCAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGt                 <  2:215687/141‑1 (MQ=255)
                                                                                                                   aTCCAGAGGTGCCGAGTTATTCAGCGCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGtt                <  1:104066/141‑1 (MQ=255)
                                                                                                                    accAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtc               <  1:187061/140‑1 (MQ=255)
                                                                                                                     ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca              <  2:280794/141‑1 (MQ=255)
                                                                                                                     ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca              <  1:58270/141‑1 (MQ=255)
                                                                                                                     ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtca              >  1:219207/1‑141 (MQ=255)
                                                                                                                           gTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGAAAAAAAGTTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGtt        >  1:95522/1‑141 (MQ=255)
                                                                                                                                 ggTTATTCAGCTCAATATCAATTAACTAATGATGATTATATTGTAGTACGATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGatat  <  2:201037/140‑1 (MQ=255)
                                                                                                                                         |                                                                                                                                    
ACTGAGGAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATAT  >  CP000730/111375‑111644

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: ‑