Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 2,589,125 T→C 9.9% F511L (TTT→CTT)  acrD → multidrug efflux pump RND permease AcrD

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,589,1250TC 9.9% 98.9 / 3.3 44F511L (TTT→CTT) acrDmultidrug efflux pump RND permease AcrD
Reads supporting (aligned to +/- strand):  ref base T (17/21);  new base C (2/2);  total (20/24)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.55e-01

ATCTATCGCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGATTTATGTCCTGCTGCTTGGCGGCATGGTGTTCCTGTTCCTGCGTTT  >  NC_000913/2588990‑2589267
                                                                                                                                       |                                                                                                                                              
ctctcgcGCCAGTTCTCTGTTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGc                                                                                                                                         <  2:782313/137‑1 (MQ=255)
aTCTATCGCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGCAACAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGc                                                                                                                                         >  1:308750/1‑143 (MQ=255)
aTCTATCGCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGc                                                                                                                                         >  2:238613/1‑143 (MQ=255)
 tCTATCGCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAAGCCTTTTTGcc                                                                                                                                        <  2:408583/143‑1 (MQ=255)
   tATCGCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCCCTGAAAAAAGGTGAGCATCATGGGCGAAAAGGCTTTTTTGCCTg                                                                                                                                      >  2:492267/1‑143 (MQ=255)
    aTCGCGAGTGCTCTATTGCCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGAGCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTgg                                                                                                                                     <  2:287797/143‑1 (MQ=255)
    aTCGCCAGTTCTGTGTTGTCTTCGGCGCGCCGGTGGTGATGGAAACACGGGGAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTgg                                                                                                                                     <  1:569948/143‑1 (MQ=255)
       gCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGttt                                                                                                                                  >  1:465472/1‑143 (MQ=255)
       gCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGttt                                                                                                                                  >  1:34585/1‑143 (MQ=255)
            ttCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTACCCa                                                                                                                             >  1:693429/1‑143 (MQ=255)
              ctctATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGa                                                                                                                           <  1:669389/143‑1 (MQ=255)
                     aCCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCAAATGATTTTTCATTATCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTaa                                                                                                                    >  1:781165/1‑143 (MQ=255)
                      ccATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACAGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTACCTGGTTTAAGCAGATGATTAAc                                                                                                                   >  2:195510/1‑143 (MQ=255)
                       cATTGTTGCGGCGATGGTGCTGTCAGCACTGGTGGAGAGGAACGTCACTCCGGCTCGGTGTGCCACACTACTTAGGCCACTGAAAAAAGGTGAGAAAAAAAAAAAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAAcc                                                                                                                  <  2:114409/143‑1 (MQ=255)
                         ttgttgCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGc                                                                                                                >  1:79016/1‑143 (MQ=255)
                                      ggTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCt                                                                                                   <  2:538224/143‑1 (MQ=255)
                                        tGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCtgc                                                                                                 >  1:525060/1‑141 (MQ=255)
                                          cTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCAACACCGCATAAGCCAGTGGAAAAAGGTGCGCTACTTGCGTTAAAAGGATTACTTGTCAGATTTAACCAGATGTTTTACTGACATGCTGAACGCttgga                                                                                               >  2:311555/1‑139 (MQ=255)
                                               aGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAAGCCTTTTTGc                                                                                                                                         >  2:484383/1‑96 (MQ=255)
                                               aGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAAGCCTTTTTGc                                                                                                                                         <  1:484383/96‑1 (MQ=255)
                                                     ggTAGCGATGATCCTCACGCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTgg                                                                                    <  1:731011/143‑1 (MQ=255)
                                                        atcgagtatCCTCACTCCGGTTCGGTGTTCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGa                                                                                 <  2:650143/136‑1 (MQ=255)
                                                        aGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGCAAAAAGGTGAGCATCATGGGATAAACAGCATCACTCCATGGAGCGCCCAGATGTTTAACCGCAACACCGAACGCTACCAACACGGGGTGGCGa                                                                                 >  2:766122/1‑143 (MQ=255)
                                                        aGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGa                                                                                 <  2:465472/143‑1 (MQ=255)
                                                           gatgagCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGaaaa                                                                              <  1:92447/143‑1 (MQ=255)
                                                               atCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAACGGGGTGGCGTAAATtct                                                                          >  1:637972/1‑143 (MQ=255)
                                                                  cTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGCAAATTCTCCa                                                                       >  2:757639/1‑143 (MQ=255)
                                                                   tCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCAc                                                                      >  1:134232/1‑143 (MQ=255)
                                                                   tCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCAc                                                                      >  1:714418/1‑143 (MQ=255)
                                                                   tCACTCCGGCTCTGGGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCAc                                                                      <  1:374572/143‑1 (MQ=255)
                                                                       tCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTa                                                                  >  1:543033/1‑143 (MQ=255)
                                                                            ctctGGGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTg                                                             <  2:781165/143‑1 (MQ=255)
                                                                                gtctgCCACATGACATATGCCACTGAAAAAAGGTGAGCATCATCGGCAAAAAGGCTTGTTGGCCTGGTTTAAGCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCt                                                         <  2:414809/140‑1 (MQ=255)
                                                                                gagagtcaccCTACGTAGGCCACGGAAAAAAGGGGAGCATCATGGGCAAAAAGCCATTAACGCCTGGTTTACGCAGACGCGTAACGACAACACAAAAAAAAAAAAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCt                                                         <  2:314844/137‑1 (MQ=255)
                                                                                      cacaCTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATtg                                                   <  1:238613/143‑1 (MQ=255)
                                                                                         tctactTAAGTTATTGAAAATATGTGTGCATCATGGGCAAAATGGCTTTTTTGCTTGGTTTAACTAGATGTTTAACCGCAACGCCGAACGTTATGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGa                                                <  2:416020/142‑1 (MQ=255)
                                                                                              ttATGCCACCGAAAAGCGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTGAACCAGATGTTTAAGCGCAACGCCGAGCGCTACGAAAATGGGGTGGCGAAAACTCTCCACCGTAGCCTGCGCTGGATTGTGATTTAt                                           <  1:114568/143‑1 (MQ=255)
                                                                                              ttAGGCGACTGAAAAAAGGTGGGCATCATGGGCAAAAAGGCTTTGTTGCCTGGTTTAACCAGATGTTTAAGCGCAGCGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGATTTAt                                           <  2:294516/143‑1 (MQ=255)
                                                                                                    cACTTAAAAAAGTTGAGCATCATGGGCAAAAAGCCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGATTTATGTCctg                                     <  1:779841/143‑1 (MQ=255)
                                                                                                                gTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCTAACGCTACGCGAAAGGGGTGGCGACAAATCTCAACCGTAGCCTGCGATGGGTTGTGAATGACGTCCTGGTGCTAggcacg                         >  2:632222/1‑140 (MQ=255)
                                                                                                                        accaggCAAAAAAGCCTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTCGCCTGCGCTGGATTGTGATTTATGTCCTGCTGCTTGGCGGCACGGtgtt                 >  2:596525/5‑143 (MQ=255)
                                                                                                                              cAAAAAGGCTTTGTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGATTTATGTCCTGCTGCTTGGCGGCATGGtgttcctgtt           <  2:169741/143‑1 (MQ=255)
                                                                                                                              cAAAAAGGCTTTGTTGCCTGGTTTAACCAGATGTCTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGATTTATGTCCTGCTGCTTGGCGGCATGGtgttcctgtt           <  1:290527/143‑1 (MQ=255)
                                                                                                                                 acaGGCTCTATTGCCTGGCTTACCCAGATCTTTACCCGCACCGCCGATCCCTACCCAGAAGGGGTGGCGAAAATTCTCCCCCGTAGCCTGCGCTGGATTGTGATTTCTGTCCTGCTGCTTGGCGGCATGGTgttcctgttcct        <  2:14102/141‑1 (MQ=255)
                                                                                                                                       ttttttGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAACAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGATTTATGTCCTGCTGCTTGGCGGCCTGGTGTTCCTGTTCCTGCGttt  >  2:301328/1‑143 (MQ=255)
                                                                                                                                       ttttttGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGACCCTCGCTTATGTCCTGCTGCTTGGCGGAATGGTGTGGCTGTTCCTGCGttt  >  1:745365/1‑143 (MQ=255)
                                                                                                                                       |                                                                                                                                              
ATCTATCGCCAGTTCTCTATTACCATTGTTGCGGCGATGGTGCTGTCAGTACTGGTAGCGATGATCCTCACTCCGGCTCTGTGTGCCACACTACTTAAGCCACTGAAAAAAGGTGAGCATCATGGGCAAAAAGGCTTTTTTGCCTGGTTTAACCAGATGTTTAACCGCAACGCCGAACGCTACGAAAAAGGGGTGGCGAAAATTCTCCACCGTAGCCTGCGCTGGATTGTGATTTATGTCCTGCTGCTTGGCGGCATGGTGTTCCTGTTCCTGCGTTT  >  NC_000913/2588990‑2589267

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑