Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 111,516 C→A 27.1% 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
*CP000730111,5160CA27.1% 46.6 / 18.6 37Q196K (CAA→AAA) USA300HOU_0110possible staphylococcal tandem lipoprotein
Reads supporting (aligned to +/- strand):  ref base C (10/17);  new base A (4/6);  total (14/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.44e-01

GAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAA  >  CP000730/111381‑111649
                                                                                                                                        |                                                                                                                                     
gAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAata                                                                                                                                   <  1:39494/140‑1 (MQ=255)
gAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAata                                                                                                                                   <  1:225672/140‑1 (MQ=255)
  aGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCAAGAGGTGCCGAGTTATTCGGCTAAATATc                                                                                                                                 >  1:14780/1‑140 (MQ=255)
           agaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTa                                                                                                                        <  1:187310/140‑1 (MQ=255)
            gaaAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTaa                                                                                                                       >  1:142995/1‑140 (MQ=255)
               aaCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCGATTAACTAatga                                                                                                                    <  1:50300/140‑1 (MQ=255)
               aaCATAAAAAAAAAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAatga                                                                                                                    <  1:50268/140‑1 (MQ=255)
                aCATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCACAGGTGCCGAGTTATTCAGCTAAATATCAATTAACTAaagat                                                                                                                   >  1:30080/1‑140 (MQ=255)
                  aTAAAAAAATAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTATAGATGTAATGAATTATAAAGATGGAGATATATCTTATGATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAAtgatga                                                                                                                 <  2:118290/140‑1 (MQ=21)
                      aaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAATATTTAATGAATTATAAAGATGGAGAGATATCATATAATCCATAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATtat                                                                                                             <  2:14172/140‑1 (MQ=255)
                      aaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATtat                                                                                                             <  1:222229/140‑1 (MQ=255)
                      aaaaaGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATtat                                                                                                             <  1:221013/140‑1 (MQ=255)
                         aaGAAAGCGACAAATTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATACCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAAt                                                                                                          <  2:127091/140‑1 (MQ=17)
                          aGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATg                                                                                                         <  1:84299/140‑1 (MQ=255)
                             aaTCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAACGTaa                                                                                                      <  1:207927/140‑1 (MQ=255)
                              aTCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGAGTTAATGAATTATAAAGATGGAGATATCTCATATAATCTAGAGGTGCCGAGTTATTCTGCTAAATATCAATTAACTAATGATGATTATAATGTaaa                                                                                                     >  1:58905/1‑140 (MQ=18)
                                cGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGATAAATTCATCTCAATATCAATTAACTAATGATGATTATAATGTAAAAc                                                                                                   >  1:125279/1‑140 (MQ=255)
                                   aaaCTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAAt                                                                                                <  1:81077/140‑1 (MQ=255)
                                    atcTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAtt                                                                                               <  1:47275/138‑1 (MQ=255)
                                        ttAAGTTTTGTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACgc                                                                                           <  2:272600/140‑2 (MQ=255)
                                                   gcgcAATATAGAAATTTTAAAGATTTAGTGGTTTATAAAGATGGAGATAGATCATATAATCCGGAGAGGCAGAGTTATTCAGCGCAATATCAATTAACTGATGATGATTATAATGTAAAACAATTACGTTAAAGATATGa                                                                                >  2:5995/1‑140 (MQ=18)
                                                    cgcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGAc                                                                               >  2:20590/1‑140 (MQ=255)
                                                     gcAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAGCTAATGATGATTATAATGTAAAACAATTACTTTAAATATATAACa                                                                              >  1:204032/1‑140 (MQ=21)
                                                        attcaGCAATTTTAAAGATTTAATGAATTATAAAGTTGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCGGCTAAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGCAAAAgatatgatatcc                                                                           <  2:195207/136‑3 (MQ=11)
                                                              cAATTTTAAAGATTTAATGAATTATAAAGTCGCAGATATATGATCAAGAACAGATGTGCCGGGTTCTCACCTACGATACCAATTCCATTACTATTATTATAATGTAAAACAATTACGTAAAAGATATGACATACcaacaa                                                                     <  1:287342/140‑1 (MQ=12)
                                                              cAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACcaacaa                                                                     <  1:262677/140‑1 (MQ=255)
                                                                           ttAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGaa                                                        <  1:85343/140‑1 (MQ=255)
                                                                                                gaTATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAgg                                   <  2:63405/140‑1 (MQ=255)
                                                                                                     atCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAATCAATTACGTAAAAGATATGACATACCAACAAATAAAACGCCGAAGCTGTTGTTGAAAGGTACAGGGAAtt                              >  1:8209/1‑140 (MQ=255)
                                                                                                               ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtc                    <  1:178773/140‑1 (MQ=255)
                                                                                                               ccAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAAATACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtc                    >  1:263037/1‑140 (MQ=255)
                                                                                                                   agGTGACGAGTTATTCAGCTCAATATCAAATAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATAGGACATACTAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTtcatca                <  2:1016/140‑1 (MQ=255)
                                                                                                                      tGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTAGGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAACTGTTGTTGAAAGGCACAGAGAAATTAAAAGGTgcatgattg             >  2:239534/1‑135 (MQ=17)
                                                                                                                       gCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGtgg            >  2:74007/1‑138 (MQ=255)
                                                                                                                           aGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGata        <  1:156043/140‑1 (MQ=255)
                                                                                                                              tATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACCATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAACTGTTGGTGAAAGGTACAGGGAATGTAAAAGTGTCATCAGTTGGCAATaa     >  2:14865/1‑140 (MQ=17)
                                                                                                                                 tCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGAAAAACATATGACATACCAGCACATAAAGCGCCGAAGATGTTGATAAAAGGAACAGGGAATTTAAAAGGCTCATCAGTGAGATATaaaaa  >  2:15500/1‑140 (MQ=14)
                                                                                                                                        |                                                                                                                                     
GAAGTTAAAGAAGAAAACATAAAAAAAGAAATCGAAAACTTTAAGTTTTTTGCGCAATATAGCAATTTTAAAGATTTAATGAATTATAAAGATGGAGATATATCATATAATCCAGAGGTGCCGAGTTATTCAGCTCAATATCAATTAACTAATGATGATTATAATGTAAAACAATTACGTAAAAGATATGACATACCAACAAATAAAGCGCCGAAGCTGTTGTTGAAAGGTACAGGGAATTTAAAAGGTTCATCAGTTGGATATAAAAA  >  CP000730/111381‑111649

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: