Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 1,817,305 G→A 9.6% A153V (GCG→GTG)  USA300HOU_1691 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007301,817,3050GA 9.6% 131.8 / 3.3 50A153V (GCG→GTG) USA300HOU_1691hypothetical protein
Reads supporting (aligned to +/- strand):  ref base G (13/31);  new base A (2/3);  total (15/35)
Fisher's exact test for biased strand distribution p-value = 6.35e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.88e-01

ATCATCTAATGGCGTCATTATATCTTGAACTATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCTTTGGACCAATATACTTTAA  >  CP000730/1817166‑1817438
                                                                                                                                           |                                                                                                                                     
atcattTAATTGCGTCATTATATCTTGAACTATTAAGATACCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATCTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGc                                                                                                                                      <  2:257687/141‑1 (MQ=255)
  catcTAATGTCGTCATTATATCTTGAACTATTAAGATATCTTTTCTTATTTTCTTATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCaa                                                                                                                                    <  2:191571/141‑1 (MQ=255)
  catcTAATGGCGTCATTATATCTTGAACTATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCaa                                                                                                                                    <  2:784887/141‑1 (MQ=255)
         tGGCGTCATTATATCTTGAACTATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATtaat                                                                                                                             <  2:367868/141‑1 (MQ=255)
             gTCATTATATCTTGAACTATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACt                                                                                                                         <  1:471640/141‑1 (MQ=255)
               cATTATATCTTGCACTATTAAGATATCTTTTCGTATTTTCTGATTAAACAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGGCAATCATGTTCATGCGCAAAATTAATAACttt                                                                                                                       >  2:136805/1‑141 (MQ=255)
                  tataTCTTGAACTATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTttatt                                                                                                                    <  1:361417/141‑1 (MQ=255)
                             cTATTAAGATATCTTTTCGTATTTTCTGATTAACAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCACAAAATTAATAACTTTATTAGATGGCTTaa                                                                                                         >  2:4146/1‑141 (MQ=255)
                             cTATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCACAAAATTAATAACTTTATTAGATGGCTTaa                                                                                                         >  2:4147/1‑141 (MQ=255)
                              tATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTaaa                                                                                                        >  1:641125/1‑141 (MQ=255)
                               aTTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAAt                                                                                                       >  1:484084/1‑141 (MQ=255)
                                 taggATATTTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATAGTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTAGTAGATGGCTTAAATcc                                                                                                     <  2:560217/138‑1 (MQ=255)
                                  aaGATATCTTTTCGTATTTTCTGGTTAAAAAGTCCTGTGTGGATAATATTTGCAACTAGCAATGTATCATAACTTGATGATAGAACAGGTAAATCACGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATcca                                                                                                    <  1:104789/141‑1 (MQ=255)
                                   aGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATccac                                                                                                   <  2:452341/141‑1 (MQ=255)
                                       atCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGt                                                                                               >  1:695560/1‑141 (MQ=255)
                                          ttttCGCATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCATCAGtaat                                                                                            <  2:206481/141‑1 (MQ=255)
                                                  ttttCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAg                                                                                    <  1:312407/141‑1 (MQ=255)
                                                  ttttCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAg                                                                                    <  2:680067/141‑1 (MQ=255)
                                                   tttCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGc                                                                                   >  2:54161/1‑141 (MQ=255)
                                                      cTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGt                                                                                >  2:177068/1‑141 (MQ=255)
                                                         aTTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTAcc                                                                             <  2:116050/141‑1 (MQ=255)
                                                           tAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACctc                                                                           <  1:685487/141‑1 (MQ=255)
                                                            aaaaaGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACctct                                                                          <  2:340876/141‑1 (MQ=255)
                                                              aaaGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCttt                                                                        >  1:337320/1‑141 (MQ=255)
                                                                       tgttgATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCtt                                                               <  2:768181/141‑1 (MQ=255)
                                                                       tgttgATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAACCtt                                                               >  2:429740/1‑141 (MQ=255)
                                                                          tgATAATATTTGCAACTAGGCATGTATCATAACTTGATGATAGAACAGGTAAATCATGGTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCaa                                                            >  1:478240/1‑141 (MQ=255)
                                                                           gATAATATTTGCAACTAGGAATGTCTCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAAt                                                           <  1:354417/141‑1 (MQ=255)
                                                                               atatTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGc                                                       <  1:520242/141‑1 (MQ=255)
                                                                               atatTTGCAACTAGGAATGTATCATAACTTCATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTATATCCACCCGTAATTACTCTAGCCGTACCTCTTTTTAAAGCTTCACTCTGc                                                       <  2:580331/141‑1 (MQ=255)
                                                                                 atTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGcac                                                     <  1:48039/141‑1 (MQ=255)
                                                                                   ttGCAACTAGTAATTTATCATAACTTGATGAAAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACAt                                                   <  2:59335/141‑1 (MQ=255)
                                                                                    tGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATc                                                  >  2:17771/1‑141 (MQ=255)
                                                                                     gCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCACAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCt                                                 <  1:4146/141‑1 (MQ=255)
                                                                                     gCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCACAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCt                                                 <  1:4147/141‑1 (MQ=255)
                                                                                          tAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACg                                            <  2:719167/141‑1 (MQ=255)
                                                                                             gAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGAtt                                         <  1:123022/141‑1 (MQ=255)
                                                                                                tGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGAAAAATTAATAACATTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTcc                                      >  2:420334/1‑141 (MQ=255)
                                                                                                   aTCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTAAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGAc                                   <  2:594734/141‑1 (MQ=255)
                                                                                                    tCATAACTTGATGATAAAACCACTGAGTCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACAAGTAATTAATATAGCCGTAACTCTTTTTAAAGCTTAAATCTGCAAATCTGCACGATTTACgcaa                                  >  2:761369/1‑138 (MQ=255)
                                                                                                              atgatAGAACAGGTAAATCATGTTCATTCTCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTCCCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATg                        <  2:516706/141‑1 (MQ=255)
                                                                                                               tgatAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGt                       <  2:267729/141‑1 (MQ=255)
                                                                                                               tgatAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTGAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGt                       <  2:459171/141‑1 (MQ=255)
                                                                                                                 atAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCt                     >  2:515785/1‑141 (MQ=255)
                                                                                                                 atAGAACAGGTAAAGCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCt                     <  1:100603/141‑1 (MQ=255)
                                                                                                                   aGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCttt                   <  2:518424/141‑1 (MQ=255)
                                                                                                                        aGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCTTTGGAcc              <  1:211626/141‑1 (MQ=255)
                                                                                                                            aaaTCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCTTTGGACCAata          <  1:136916/141‑1 (MQ=255)
                                                                                                                                cATGTTCATTCACAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCTTTGGACCAATATACt      <  2:336868/141‑1 (MQ=255)
                                                                                                                                    ttCATTCGCAAAATTAATAACTTTACTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTCACAAGCTTAAATCTTCGCATCTTAACTCTTTCCGACAATCAATGATGTCTTTGGACCAATATACttgct  <  2:237510/141‑4 (MQ=255)
                                                                                                                                           |                                                                                                                                     
ATCATCTAATGGCGTCATTATATCTTGAACTATTAAGATATCTTTTCGTATTTTCTGATTAAAAAGTGCTTTGTTGATAATATTTGCAACTAGGAATGTATCATAACTTGATGATAGAACAGGTAAATCATGTTCATTCGCAAAATTAATAACTTTATTAGATGGCTTAAATCCACCAGTAATTAATATAGCCGTACCTCTTTTTAAAGCTTCAATCTGCACATCTTCACGATTTCCGACAATCAATAATGTCTTTGGACCAATATACTTTAA  >  CP000730/1817166‑1817438

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑