Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 76,969 G→A 100% intergenic (+1027/‑107) USA300HOU_0072 → / → USA300HOU_0075 universal stress protein/lysophospholipase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP00073076,9690GA100.0% 182.2 / NA 58intergenic (+1027/‑107)USA300HOU_0072/USA300HOU_0075universal stress protein/lysophospholipase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (27/31);  total (27/31)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCAA  >  CP000730/76833‑77103
                                                                                                                                        |                                                                                                                                      
ttCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGtt                                                                                                                                    >  1:318483/1‑141 (MQ=255)
ttCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGAGCGTAAAAGGtt                                                                                                                                    >  2:509734/1‑141 (MQ=255)
  cAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTaa                                                                                                                                  <  1:575207/141‑1 (MQ=255)
         aCGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTtatat                                                                                                                           >  1:226951/1‑141 (MQ=255)
            gATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGt                                                                                                                        >  1:562339/1‑141 (MQ=255)
               tttCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGATAAGTGATATCGTAtt                                                                                                                     >  1:601320/1‑141 (MQ=17)
                ttCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTa                                                                                                                    <  1:255484/141‑1 (MQ=255)
                    ccATGCCACGAAGTTAGCATCATGATAGCAAGTTAAGCGAACACTGAAATGAAAAATTAGTGGTTAGATATATCTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGc                                                                                                                <  1:653228/141‑1 (MQ=18)
                    ccATGCCACGAAATTAGCATCATGCTAGCAAGTTAATCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAATACATGGGCTTAAAAGGTTCATGTATATAGTATTACTGc                                                                                                                <  1:370677/141‑1 (MQ=17)
                       tGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATCATACATTAGTGGTTAGCCATATTTTTGTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCaaa                                                                                                             <  2:569464/141‑1 (MQ=21)
                        gCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAAc                                                                                                            <  1:445173/141‑1 (MQ=255)
                        gCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAAc                                                                                                            >  1:120988/1‑141 (MQ=255)
                        gCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAAc                                                                                                            >  1:120973/1‑141 (MQ=255)
                         ccACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACa                                                                                                           <  2:278074/141‑1 (MQ=255)
                                     catcatGCTAGCAAGTTAAGCGAATACCGGCATGAGAAATTTGTGGCACACTATAGTTGTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTc                                                                                               <  1:481063/141‑1 (MQ=25)
                                     catcatGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACGGCAAACATTGATTTGGGTc                                                                                               <  1:213641/141‑1 (MQ=255)
                                                ccaGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAggg                                                                                    <  1:502269/139‑1 (MQ=255)
                                                    ttAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTCAAAGGTTAATTTATATAGAATTACTGCACACATTGATTTGGGGCCAAAATTAggagcat                                                                                >  2:347982/1‑136 (MQ=25)
                                                           aaCACTGACGTGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTAATTTGGGTCAAAAATTAGCGGTATTaaaaaa                                                                         >  2:168614/1‑141 (MQ=255)
                                                           aaCACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTCTTaaaaaa                                                                         >  2:544718/1‑141 (MQ=255)
                                                            acacTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACGTGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTaaaaaaa                                                                        >  2:172876/1‑141 (MQ=255)
                                                                 gACATGATAAATTAGGGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAaatgaat                                                                   <  1:277859/141‑1 (MQ=255)
                                                                    aTGATAAATGAGTGGTTTGCTATATTTTGTTACTTTGCAACAGAACCTATATAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAAtgaatgaa                                                                <  1:150288/141‑1 (MQ=39)
                                                                           aTTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATACAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAAt                                                         >  2:356394/1‑141 (MQ=255)
                                                                           aTTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAAt                                                         >  1:119485/1‑141 (MQ=255)
                                                                                tGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTAt                                                    >  1:646454/1‑141 (MQ=255)
                                                                                    tAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAg                                                <  1:410213/141‑1 (MQ=255)
                                                                                     aGCTAAATTTTTTGACTTTGCAACAGAACCGATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAAAAGAAAAAAAAAAATGAATGAATCATAATTTTATCAAGc                                               <  1:146763/141‑1 (MQ=255)
                                                                                      gCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGAGTATAAAAAAAATGAATGAATCATAATTTTATCAAGCt                                              <  2:417757/141‑1 (MQ=255)
                                                                                      gCTATATTTTTTTACTTTGCAACAGAACCGATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCt                                              <  1:323217/141‑1 (MQ=255)
                                                                                         atatTTTTTTTCTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTTTATAGTATTACTGCAAACATTGATTTGGGCCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCACGCAGAt                                           >  2:262901/1‑141 (MQ=255)
                                                                                         atatTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGGTTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTAGCAAGCTGAt                                           >  1:138820/1‑141 (MQ=255)
                                                                                           atTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTg                                         >  1:73063/1‑141 (MQ=255)
                                                                                           atTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAAGGAATCATAATTTTATCAAGCTGAGTg                                         >  1:239350/1‑141 (MQ=255)
                                                                                            tttttttACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTgg                                        >  2:446297/1‑141 (MQ=255)
                                                                                              tttttACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTACTTTATAAAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGgag                                      <  1:347982/141‑1 (MQ=255)
                                                                                                tttAGTTTGCAAAAGAAACTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGAATAATAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGagag                                    <  2:25139/141‑1 (MQ=255)
                                                                                                tttACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGagag                                    >  1:200053/1‑141 (MQ=255)
                                                                                                  tACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTACAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGt                                  <  2:387785/141‑1 (MQ=255)
                                                                                                   aCTTTGCAACAGAACCTATACACAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGtt                                 <  1:305877/141‑1 (MQ=255)
                                                                                                   aCTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGtt                                 >  2:590958/1‑141 (MQ=255)
                                                                                                   aCTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGtt                                 <  2:501407/141‑1 (MQ=255)
                                                                                                   aCTGTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAATAATTAGGGGTAATAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGtt                                 <  2:371332/141‑1 (MQ=255)
                                                                                                    cTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTa                                >  1:36435/1‑141 (MQ=255)
                                                                                                       tGCAGCGGAGCCTATGAGAAGAATGGGCTTGAGAGGTTAATTTATATAGTATTAGTGCAAACATTGATTTGGGTCAAAAATGAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTaagg                             <  2:250042/141‑3 (MQ=255)
                                                                                                            cAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTAATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCAt                        <  2:507959/141‑1 (MQ=255)
                                                                                                              gAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATta                      >  1:378031/1‑141 (MQ=255)
                                                                                                                aCCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTCGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGAATGGAGAGGTTAAAATGCATtata                    <  2:476549/141‑1 (MQ=255)
                                                                                                                 cccacaaaaaaCATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATTAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATtatat                   <  1:335134/136‑1 (MQ=255)
                                                                                                                 ccTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATtatat                   <  1:214201/141‑1 (MQ=255)
                                                                                                                      aacaaaCATGGGCTCAAAATGTTAATTTATATAGTATTACTGCAAACATTTATTTGGGTCAACAATTAGGGGTATTAAAAAAATGAATGACTCATTATTTTATCATGCTGATTGGAGAGGTTAAAATGCATTAGATAAAAt              <  2:153663/138‑1 (MQ=255)
                                                                                                                           aCATGGGCTTAAAAGGTTAGTTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATGATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTAtt         <  2:491549/141‑1 (MQ=255)
                                                                                                                             aTGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGa       >  2:662483/1‑141 (MQ=255)
                                                                                                                              tGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATACTAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTACATAAAATTTATTGAg      >  1:417017/1‑141 (MQ=255)
                                                                                                                              tGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATCGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGGGAGGTTAAAATGCATTATATAAAATTTATTGAg      >  1:615742/1‑141 (MQ=255)
                                                                                                                                 gCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCa   >  2:86681/1‑141 (MQ=255)
                                                                                                                                  cTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGTGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCaa  <  1:509734/141‑1 (MQ=255)
                                                                                                                                  cTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATAAGAAAAAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCaa  <  2:318483/141‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                      
TTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCAA  >  CP000730/76833‑77103

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: