Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 76,969 G→A 20.7% 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
*CP00073076,9690GA20.7% 66.4 / 8.2 37intergenic (+1027/‑107)USA300HOU_0072/USA300HOU_0075universal stress protein/lysophospholipase
Reads supporting (aligned to +/- strand):  ref base G (12/17);  new base A (3/5);  total (15/22)
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

TCTTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCAAAAGAT  >  CP000730/76831‑77108
                                                                                                                                          |                                                                                                                                           
tctTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAGAggg                                                                                                                                           >  1:559514/1‑141 (MQ=255)
    cAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACATTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTaa                                                                                                                                       <  1:190628/141‑1 (MQ=255)
           aCGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTtatat                                                                                                                                <  1:151400/141‑1 (MQ=255)
             ggATATTCGACAGGCCCAGAAAGTGGCATTATGCTAGCAAGTTAAGCGAACCCTGAGATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCGAGAAAAAACACGGGCTTAAAGGGCTAATTTATATAg                                                                                                                              <  2:103654/141‑1 (MQ=17)
                 tttCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATTAATTAGTGGTTAGCTATATTTTTTTTCTTTGTATAGGTACCTATAAAAAAAATGGGTTTAAAAGGTTAATTTTTATTGTAtt                                                                                                                          >  2:546353/1‑141 (MQ=14)
                  ttCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTCTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTa                                                                                                                         <  1:395267/141‑1 (MQ=255)
                   tCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCGACATAACCTATAAAAAACATGGGCTTAAAAGGGTAATTTATAGAGTATTAc                                                                                                                        >  1:277180/1‑141 (MQ=18)
                   tCGCCATGCCACGAAATTAGCATCATGATAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTAc                                                                                                                        <  2:357851/141‑1 (MQ=255)
                        aTGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCaa                                                                                                                   <  1:90359/141‑1 (MQ=255)
                                       catcatGCTAGCAAGTTAAGCGAAAACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTc                                                                                                    >  2:576743/1‑141 (MQ=255)
                                        atcatGCTTGCAATGTAAGCTATCACTGACAGGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCGATAAAAAACATGGGCTTAAAGGGTTAATTTATACAGTATTACTGCAAACATTGATTTGGGTCa                                                                                                   <  2:591401/141‑1 (MQ=25)
                                           atGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCGATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGTAAAAATTGATGTGGGTCacaa                                                                                                >  1:51053/1‑141 (MQ=21)
                                                 gCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTAAAAGGGTTAATTTATGTAGTATTACGGCAAACATTGATTTGGCTCAAAAAttttg                                                                                          >  2:237492/1‑138 (MQ=25)
                                                         aGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACATATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGGATTaa                                                                                  >  2:205463/1‑141 (MQ=255)
                                                          gCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTaaa                                                                                 >  1:38983/1‑141 (MQ=255)
                                                               atctgatctGAAAAATGAGTGTGTAGCTATATTGTTTTACTTTGCAACAGAACCGATTAACAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGGAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAaat                                                                            <  2:458873/133‑1 (MQ=255)
                                                                  tGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAaatgaa                                                                         <  1:418317/141‑1 (MQ=255)
                                                                             aTTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAAt                                                              >  1:284636/1‑141 (MQ=255)
                                                                               tAGTGGTTAGCTATATTTTTTTTTTTTTTTACAGAACCTATAAAAAGCATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAAttt                                                            >  2:390255/1‑141 (MQ=255)
                                                                                  tGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGCGTATTAAACAGATGATTGAATCATCATTTTAt                                                         >  1:260211/1‑141 (MQ=39)
                                                                                      tAGCTATATTTTTTTACGTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAg                                                     <  2:494597/141‑1 (MQ=255)
                                                                                         cTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTCCCCGATTTATTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTg                                                  <  1:444045/141‑1 (MQ=255)
                                                                                         cTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTg                                                  <  2:511925/141‑1 (MQ=255)
                                                                                           atatTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCAGAt                                                >  2:515162/1‑141 (MQ=255)
                                                                                            tatTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGAtt                                               >  1:561860/1‑141 (MQ=255)
                                                                                             atTTTTTTACTTTGCAACAGGACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTg                                              <  2:459985/141‑1 (MQ=255)
                                                                                                tttttACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGgag                                           <  1:284656/141‑1 (MQ=255)
                                                                                                       attGCAAGAACACCTAAAAAAAACACGAGATTAAAGGGTTAAATTATATTGTATTACTGCAAACATAAAAAAAAAAAAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAATCTGATTGGAGAGGTTaa                                    <  2:190801/140‑1 (MQ=255)
                                                                                                           aaaCAGAACAAATGAAAAACATGGGCTTAAAAGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATg                                <  2:7923/140‑1 (MQ=255)
                                                                                                                gAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATta                           >  1:193800/1‑141 (MQ=255)
                                                                                                                      ataAAAAACAAGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAAGGCTATTCAAACAATTAACCAATCATAATTTTCTCCAGCCTATTGGAGAGGTTAAAATGCATTATATaaa                     <  2:585250/141‑1 (MQ=255)
                                                                                                                         taaaaaaTGGGACTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAAtt                  <  1:429021/140‑1 (MQ=255)
                                                                                                                             aCATGGGCTTAAAAGGATAATTCAAATAGTATTACTGCAAACATTGATTTGAGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTAtt              <  1:546353/141‑1 (MQ=255)
                                                                                                                              cATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTg             >  1:207877/1‑141 (MQ=255)
                                                                                                                                 gggCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGt          <  2:10827/141‑1 (MQ=255)
                                                                                                                                 gggCTGAATGAGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATGAGGGGTATTAAAAAAATGAATGAATCACAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGt          <  2:51053/141‑1 (MQ=255)
                                                                                                                                    cTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAAtttttttatccat       <  2:527461/141‑8 (MQ=255)
                                                                                                                                         aGGGTTAATTTATATAGTATTAATGAAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCGGATTGAAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCAAAAGat  >  2:290407/1‑141 (MQ=255)
                                                                                                                                          |                                                                                                                                           
TCTTCAGATCTACGGATTTTCGCCATGCCACGAAATTAGCATCATGCTAGCAAGTTAAGCGAACACTGACATGATAAATTAGTGGTTAGCTATATTTTTTTACTTTGCAACAGAACCTATAAAAAACATGGGCTTAAAGGGTTAATTTATATAGTATTACTGCAAACATTGATTTGGGTCAAAAATTAGGGGTATTAAAAAAATGAATGAATCATAATTTTATCAAGCTGATTGGAGAGGTTAAAATGCATTATATAAAATTTATTGAGTCAAAAGAT  >  CP000730/76831‑77108

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: ‑