Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 535,044 A→G 15.3% intergenic (+4615/‑1110) USA300HOU_0494 → / → rplY hypothetical protein/ribosomal protein L25

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP000730535,0440AG15.3% 58.2 / 4.4 26intergenic (+4615/‑1110)USA300HOU_0494/rplYhypothetical protein/ribosomal protein L25
Reads supporting (aligned to +/- strand):  ref base A (14/8);  new base G (2/2);  total (16/10)
Fisher's exact test for biased strand distribution p-value = 6.25e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.43e-01

TTTAAAATGGCTAGGATAAAAGGATAATCCTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTGAACTAGGTAAATGTTCAGTTAAACGTTTTAGTG  >  CP000730/534904‑535168
                                                                                                                                            |                                                                                                                            
tttAAAATGGCTAGGATAAAAGGATAATCCTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTa                                                                                                                              >  2:176922/1‑141 (MQ=255)
    aaaTGGCTAGGATAAAAGGATAATCCTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGGGGACTATAAATGTTAaata                                                                                                                          >  2:177181/1‑141 (MQ=255)
     aaTGGCTAGGATAAAAGGATAATCCTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAaataa                                                                                                                         <  2:152710/141‑1 (MQ=255)
                        tAATCCTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTGAATAATGAATATAAGAATTCGTCa                                                                                                      >  2:67357/1‑141 (MQ=255)
                        tAATCCTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTGAATAATGAATATAAGAATTCGTCa                                                                                                      >  2:63143/1‑141 (MQ=255)
                            ccTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTaa                                                                                                  >  1:138240/1‑141 (MQ=255)
                                    atatTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAAAttttt                                                                                          >  2:173173/1‑141 (MQ=255)
                                           tGTAATCTTTATGATTTAATGATTCGCATAGTAGCAGCACATCGCTTTATGTATAAAAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGa                                                                                   >  1:276704/1‑141 (MQ=255)
                                           tGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGa                                                                                   >  2:259611/1‑141 (MQ=255)
                                               atttttATTATTTAATGATTCGGAGAGGAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAgg                                                                               <  1:213385/138‑1 (MQ=255)
                                                 cTTTATGATTTAATTATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGaa                                                                             <  1:237591/141‑1 (MQ=255)
                                                 cTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAGTAGAAGAATTCGTCATTAAAGATTCTTTCATTGAAAGGaa                                                                             >  1:197935/1‑141 (MQ=255)
                                                   ttATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAAc                                                                           >  2:100572/1‑141 (MQ=255)
                                                     aTGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGa                                                                         <  1:69887/141‑1 (MQ=255)
                                                     aTGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGa                                                                         >  2:77249/1‑141 (MQ=255)
                                                           tAATGATTCGCATAGTAATGGAGTTACATTTTATGTATAATCGTAATTGCGTAAGTAAAGAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGGCCTTAAAGATTTTTTACTTGAAAGGAAGCGaacaatt                                                                   >  2:272863/1‑136 (MQ=255)
                                                              tGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTGAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAgc                                                                <  1:63143/141‑1 (MQ=255)
                                                              tGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTGAATAATGAATATAAGAATTCGTCATTAAAGATTTTATCAGGAAAAGGAAACGAAGCATTAgc                                                                <  1:67357/141‑1 (MQ=255)
                                                                                           atatataATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTg                                   >  1:160435/1‑141 (MQ=255)
                                                                                                taataGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTGAACTa                              >  1:238695/1‑141 (MQ=255)
                                                                                                     gTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTGGACTAGGTaa                         <  1:205440/141‑1 (MQ=255)
                                                                                                             gtaagtaaATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTGAACTAGGTAAATGTTCAg                 >  1:268440/1‑141 (MQ=255)
                                                                                                              taagtaaATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTAATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAATTTGCTGACCAAGTAGGAATTGAACTAGGTAAATGTTCAGt                <  2:276704/141‑1 (MQ=255)
                                                                                                                      taatTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTTTTTTTTTTTTAACGAAGAATTAGCGCAAGAAGTTACTGACCAAGTAGGCATTGAAATAGGGAGATGTTCAGTTaatggtt        >  2:181285/1‑136 (MQ=255)
                                                                                                                        atTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTGAACTAGGTAAATGTTCAGTTAAACGtttt      <  2:160435/141‑1 (MQ=255)
                                                                                                                          tGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACAAAGTAGGAATTGAACTAGGTAAATGTTCAGTTAAACGTTTTAg    >  2:9676/1‑141 (MQ=255)
                                                                                                                            gaggaCTATAAATGTTAAATAATGAATATAAGANTTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTGAACTAGGTAAATGTTCAGTTAAACGTTTTAGTg  <  1:18912/141‑1 (MQ=255)
                                                                                                                                            |                                                                                                                            
TTTAAAATGGCTAGGATAAAAGGATAATCCTATGTAATATTAATGTAATCTTTATGATTTAATGATTCGCATAGTAATGGAGTTACATTTTATATATAATAGTAATTGCGTAAGTAAATAATTGGAGGACTATAAATGTTAAATAATGAATATAAGAATTCGTCATTAAAGATTTTTTCATTGAAAGGAAACGAAGCATTAGCGCAAGAAGTTGCTGACCAAGTAGGAATTGAACTAGGTAAATGTTCAGTTAAACGTTTTAGTG  >  CP000730/534904‑535168

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: ‑