Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 195,286 T→A 100% intergenic (‑97/‑82) USA300HOU_0183 ← / → USA300HOU_0184 hypothetical protein/hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730195,2860TA96.9% 146.0 / ‑3.2 48intergenic (‑97/‑82)USA300HOU_0183/USA300HOU_0184hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base A (24/22);  total (25/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as polymorphism: E-value score below prediction cutoff.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTTAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAG  >  CP000730/195150‑195422
                                                                                                                                        |                                                                                                                                         
tGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAaaaa                                                                                                                                       >  1:524733/1‑141 (MQ=255)
tGTTTCTAGCTAAACTTGCTACGAAAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGTAAATATATTTTACAGAATTTTATCTAAATATTTaaaa                                                                                                                                       >  2:47666/1‑141 (MQ=255)
 gTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTaaaaaa                                                                                                                                      >  1:475176/1‑141 (MQ=255)
     cTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCTCCCTATATATATGTTTATTTACTTATATCCTATCATGTTTTTTATAGTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAATAAAAatt                                                                                                                                  >  1:38674/1‑140 (MQ=255)
     cTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAACAAata                                                                                                                                  >  1:106407/1‑141 (MQ=255)
      tAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTCTATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTTAAAATATCTTTTCCAGAATTTTTTTTAAATATTAATAAAAattt                                                                                                                                 >  2:617074/1‑139 (MQ=255)
        gCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATAACt                                                                                                                               >  2:396426/1‑141 (MQ=255)
             aCTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAata                                                                                                                          <  2:190137/141‑1 (MQ=255)
             aCTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAata                                                                                                                          <  2:532167/141‑1 (MQ=255)
               ttGCTACGACAGATTCTTTAACCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATc                                                                                                                        <  2:653361/141‑1 (MQ=255)
                 gCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCt                                                                                                                      >  1:409999/1‑141 (MQ=255)
                   tACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTg                                                                                                                   <  1:374707/141‑1 (MQ=255)
                      gACTGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAGAAGATTAAATTAATATCTTAATATCCTTGTaa                                                                                                                <  1:159869/141‑1 (MQ=255)
                           aTTCTTTATCCATAATGATAGCCCCCTATATATATGTTTCTTTCCTTATCACATTACGTGATTTTTATCCTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGa                                                                                                           <  1:126358/141‑1 (MQ=255)
                               tttATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAg                                                                                                       >  2:195658/1‑141 (MQ=255)
                               tttATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAg                                                                                                       <  1:87544/141‑1 (MQ=255)
                                           gATAGCCCCCTATATATATGTTTATTTACTAATACCCTAAAATGATTTTTATAATCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTAGTAATACGATAAGGATTGTAGTAat                                                                                           >  1:195555/1‑141 (MQ=255)
                                                cccccTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATAtttt                                                                                      <  1:4693/141‑1 (MQ=255)
                                                 ccccTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAata                                                                                          >  1:26781/1‑136 (MQ=255)
                                                 ccccTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAata                                                                                          <  2:26781/136‑1 (MQ=255)
                                                  cccTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATAtttttt                                                                                    <  2:20319/141‑1 (MQ=255)
                                                       aatatatGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAAcc                                                                               <  1:33919/140‑1 (MQ=255)
                                                              ggttatttaCTTATCCCCTAACATGAATTTTATACTCTTTGAAAATATATTTTACATAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTta                                                                        <  2:268202/139‑1 (MQ=255)
                                                                ttttttaCTTATACCCTAACATGATTTTTATAGTCGTTTAAAATATATTTTACAGAACTTTATATAAATATTAAAAAAAATATCTTAATATCCCTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTtata                                                                      <  2:84778/138‑1 (MQ=255)
                                                                ttatgtaCTTAAAACCTAACATGATTTTTATACTCTTAGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTtata                                                                      <  2:666281/141‑1 (MQ=255)
                                                                  attgaattATACCCTATCATCATTTTTATACTCATTAAAAATATATTTTACAGAATTGTATCAAAAAAAAAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATagg                                                                    <  2:549664/135‑1 (MQ=255)
                                                                   tttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATagga                                                                   <  1:562642/141‑1 (MQ=255)
                                                                   tttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATagga                                                                   >  1:360605/1‑141 (MQ=255)
                                                                       cTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAATAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCACCCATTGTTGTAGGAGGTc                                                               >  2:29993/1‑141 (MQ=255)
                                                                         tttgtccTATCATGATTGTTATTCTCTTTGAAAATATAGTTCGCACACTTTTATGTAAATATTAAAAAAAATATCTTCATATCCTTGTAATCCGATTAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCtt                                                             <  2:567130/136‑1 (MQ=255)
                                                                            aCCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCAGATATAAATTATAGTAATATTTTTTCAACCATTGTTCAAGGAGGTCttatt                                                          >  2:191395/1‑141 (MQ=255)
                                                                                 aaCATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGa                                                     >  1:145790/1‑141 (MQ=255)
                                                                                    aTGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATTAAAATTATAGTAATATTTTTTTAACCATTGTTATAGGAGGTCTTATTAATGACat                                                  >  2:364662/1‑141 (MQ=255)
                                                                                                  ctTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATAGTTTtgatattaa                                    >  2:136332/1‑136 (MQ=255)
                                                                                                          atatatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACaa                            >  2:557128/1‑141 (MQ=255)
                                                                                                          atatatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACaa                            >  1:623726/1‑141 (MQ=255)
                                                                                                          atatatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTAAACCAATGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACaa                            >  1:624457/1‑141 (MQ=255)
                                                                                                           ttgagtttACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAAt                           <  2:494821/136‑1 (MQ=255)
                                                                                                             tatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGCTAAGAATTATAGTAATATTTTCTCAGCCATTGTTATAGCAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCt                         <  2:274193/141‑1 (MQ=255)
                                                                                                                 ttACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGAt                     >  2:626442/1‑141 (MQ=255)
                                                                                                                          tttATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACAATTGTTATAGGAGGTCTTATTACTGACATTATTTTTATTAGAAGCTAACCATCTTAAttttacgtaa            >  2:516567/1‑135 (MQ=255)
                                                                                                                          tttATCTAAATATTAAAAAAAATATCTTATATTCTGTGTAATCCGAGAAAAAGTATAGTAATATTTTTTCAACCATTGATATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAAAAATATTGATTTTGCCTCa            >  2:276143/1‑141 (MQ=255)
                                                                                                                           ttATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCaa           <  1:348038/141‑1 (MQ=255)
                                                                                                                           ttATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCaa           <  1:646474/141‑1 (MQ=255)
                                                                                                                             aTCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACg         <  2:360605/141‑1 (MQ=255)
                                                                                                                              tCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGa        >  2:655486/1‑141 (MQ=255)
                                                                                                                                  aaTATTAAAAAAAATATCTTAATATCCTTGTAATACGATCAGAATTATAGTAATATTTTTTCACCCATTGTTATAGGAGGTCTTATTAATTACATTATTTTTATTAGAAGCTAAGAATCTTGTTTTTGCATCAACGAaaga    >  2:657895/1‑141 (MQ=255)
                                                                                                                                   atatTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAaagaa   <  1:195658/141‑1 (MQ=255)
                                                                                                                                    tatTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACAATTGTTATAGGGGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTCATTTTGTATCCACGAaagaag  >  1:91839/1‑141 (MQ=255)
                                                                                                                                        |                                                                                                                                         
TGTTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTTAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTATAGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAG  >  CP000730/195150‑195422

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: