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
*CP000730195,2860TA100.0% 148.7 / NA 46intergenic (‑97/‑82)USA300HOU_0183/USA300HOU_0184hypothetical protein/hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (30/16);  total (30/16)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTTAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAGA  >  CP000730/195152‑195423
                                                                                                                                      |                                                                                                                                          
tttCTAGCTAAACTTGCTACGCCAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAaaaaaa                                                                                                                                      <  1:457220/141‑1 (MQ=255)
tttCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAaaaaaa                                                                                                                                      >  2:244170/1‑141 (MQ=255)
           aCTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAata                                                                                                                           >  1:308927/1‑141 (MQ=255)
              tGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTATATGTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATct                                                                                                                        >  1:250779/1‑140 (MQ=255)
               gCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCt                                                                                                                       >  1:72853/1‑141 (MQ=255)
                 tACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTg                                                                                                                     <  2:67777/141‑1 (MQ=255)
                           tCTTTATCCATTATGATAGCCCCTTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATCTTATCTAAATATTAAAAAAAATATCTTAATCTCCTTGTAATCCGATa                                                                                                           <  2:366328/141‑1 (MQ=255)
                           tCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATa                                                                                                           <  1:462972/141‑1 (MQ=255)
                            cTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCATTGTAATCCGATaa                                                                                                          >  1:79101/1‑141 (MQ=255)
                                  ccATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATta                                                                                                    <  1:205952/141‑1 (MQ=255)
                                   cATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAAttgt                                                                                                   >  1:301951/1‑139 (MQ=255)
                                       aTGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTa                                                                                               >  1:88149/1‑141 (MQ=255)
                                          aTAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAata                                                                                            >  1:405972/1‑141 (MQ=255)
                                            aGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCTATAAGAATTATAGTAAAAtt                                                                                          >  1:144474/1‑141 (MQ=255)
                                                   tatatataTGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCaa                                                                                   >  1:553480/1‑141 (MQ=255)
                                                     tatatatGTTTATTTACTTACACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATGAGAATTATAGTAATATTTTTTCAAcc                                                                                 >  1:346635/1‑141 (MQ=255)
                                                      atatatGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCa                                                                                >  1:454882/1‑141 (MQ=255)
                                                      atatagGTTTATTTAATTATACCCTAACATGATTTTTATACTCTTTAAAAATATATTTTACAGAATTTTATAAAAAAAAAAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCa                                                                                <  2:279494/141‑1 (MQ=255)
                                                        atatGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCAtt                                                                              <  1:350671/141‑1 (MQ=255)
                                                         tatGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTTTAGTAATATTTTTTCAACCATTg                                                                             >  1:225419/1‑141 (MQ=255)
                                                              ttatttaCTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTtat‑a                                                                       <  1:302241/141‑1 (MQ=255)
                                                                      ttATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGATGTCt                                                               >  2:358432/1‑141 (MQ=255)
                                                                       tataCCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCtt                                                              <  1:524867/141‑1 (MQ=255)
                                                                         taCCCTAACATGATTTTTATACTCTTTGAAAATATATTATACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCttat                                                            >  1:366900/1‑141 (MQ=255)
                                                                          aCCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCttatt                                                           >  2:182304/1‑141 (MQ=255)
                                                                                aCATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGAc                                                     <  1:244170/141‑1 (MQ=255)
                                                                                aCATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAAAAACTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAA‑ATGAGGTGTAATTAGTGaa                                                     >  2:198278/1‑140 (MQ=255)
                                                                                    gATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGTGGTCTTATTAATGACattt                                                 >  1:459106/1‑140 (MQ=255)
                                                                                     aTTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTACAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACattat                                                >  1:378072/1‑141 (MQ=255)
                                                                                     aTTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACTATTGTAAT‑AGGAGGTCTTATTAATGACattat                                                >  2:540966/1‑141 (MQ=255)
                                                                                       ttttATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTAttt                                              >  1:103986/1‑141 (MQ=255)
                                                                                       ttttATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTAttt                                              >  1:466557/1‑141 (MQ=255)
                                                                                       ttttATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTAttt                                              >  1:392436/1‑141 (MQ=255)
                                                                                       ttttATACTCTTTGAAAATATATTTTAAAGAATTTTATCTAAATATTAAAAACAATATCTTAATATTCTTGTACTCCGATAAGAATTATAGTAATATTTTTTCAACCCTTGTTGTCAGGA‑GTCTTATTAGTAACATTAttt                                              >  1:175111/1‑141 (MQ=255)
                                                                                             aCTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTttatta                                        >  1:39406/1‑141 (MQ=255)
                                                                                              ctctTTGAAAATATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATAATTTTTCAACCATGGTTAT‑AGGCGGTCTTATTAATGAAATTATTTttattat                                       >  2:221493/1‑140 (MQ=255)
                                                                                                     aaaaTATATTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTaa                                >  1:49647/1‑141 (MQ=255)
                                                                                                           tatTTTACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGGATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCt                          <  1:257573/141‑1 (MQ=255)
                                                                                                              tttACAGAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGa                       >  1:399782/1‑141 (MQ=255)
                                                                                                                    gAATTTTATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGc                 <  1:153025/141‑1 (MQ=255)
                                                                                                                    aaaTTTCATCTAAATATTAAAAAAAATAGCCTAATATCGTTGGAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTCTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGc                 <  1:193430/140‑1 (MQ=255)
                                                                                                                         ttATCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCaa            >  2:55248/1‑141 (MQ=255)
                                                                                                                           aTCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACg          <  2:308927/141‑1 (MQ=255)
                                                                                                                            tCTAAATATTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTACCAATCTTGATTTTGCATCACCGa         >  1:95946/1‑141 (MQ=255)
                                                                                                                               aaaTAATAAAAAAAATATCTTTATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAaag      <  2:18304/141‑1 (MQ=255)
                                                                                                                                 atatTAAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACATTCTTGATTTTGCATCAACGAaagaa    <  2:405972/141‑1 (MQ=255)
                                                                                                                                   tattAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAagaaga  >  2:194336/3‑141 (MQ=255)
                                                                                                                                      |                                                                                                                                          
TTTCTAGCTAAACTTGCTACGACAGATTCTTTATCCATAATGATAGCCCCCTATATATATGTTTATTTACTTATACCCTAACATGATTTTTATACTCTTTGAAAATATATTTTACAGAATTTTATCTAAATATTTAAAAAAATATCTTAATATCCTTGTAATCCGATAAGAATTATAGTAATATTTTTTCAACCATTGTTAT‑AGGAGGTCTTATTAATGACATTATTTTTATTAGAAGCTAACAATCTTGATTTTGCATCAACGAAAGAAGA  >  CP000730/195152‑195423

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: ‑