Predicted mutation
evidence seq id position mutation annotation gene description
RA CP009273 1,738,537 A→T Q275L (CAG→CTG)  mdtK → multidrug efflux system transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092731,738,5370AT92.5% 113.4 / NA 41Q275L (CAG→CTG) mdtKmultidrug efflux system transporter
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base T (18/19);  minor base G (3/0);  total (22/19)
Fisher's exact test for biased strand distribution p-value = 2.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAAAACCCGATCCTGCGGTTATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATGCGCAAACCGCTGCGCGGACCGGGCTT  >  CP009273/1738396‑1738670
                                                                                                                                             |                                                                                                                                     
gcaagcccGATCCTGCGTTGTTGAATCGACTGTGTCAACCCGGTTTGCCGATTGCGCCGGCCCTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGcc                                                                                                                                <  1:696527/144‑1 (MQ=255)
cacaccccGATCCTGCGGTTATGTAACGACTGATTCAACTCGGTGTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGcc                                                                                                                                <  1:384457/144‑1 (MQ=255)
cAAAACCCGATCCTGCGGTTATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGGATTGTTGATGTCGCAGGACACCGGGTTGcg                                                                                                                                >  1:382030/1‑148 (MQ=255)
     cccGATCCTGCGGTTATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGag                                                                                                                           >  2:708271/1‑148 (MQ=255)
       cGATCCTGCGGTTATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTATTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGAATTGTTGATGTCGCAGGACACCGGATTGTCACGAACt                                                                                                                         >  2:196778/1‑149 (MQ=255)
                ggTTATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCAc                                                                                                                <  2:390063/149‑1 (MQ=255)
                 gttacggaccGACTGGTTCTACTCGGTTTGCCGATTGTGCGGGCACGGTTCTTTGACGTGACACTGTTTGCCGTCGTGGCTCTGGTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTAAAGTTCagg                                                                                                               <  1:87371/140‑3 (MQ=255)
                 gTTATGACACGACTGCTTCACCTGGGTTTGCCGATTGCTCTGGCACTGTTCTTTGATGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTAAAGTTCagg                                                                                                               <  1:343213/149‑3 (MQ=255)
                  ttATGAAGCGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCGCTGTTCTTTGAAGTGAGACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTGCGCTCGGTATTCTTGATGTCGCAGGACACCTGATTGCGCTGAGCTTTAGTTCACTa                                                                                                              >  1:457010/1‑149 (MQ=255)
                  ttATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTa                                                                                                              >  1:100692/1‑149 (MQ=255)
                   tATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGAACCTATTTGCAGTCGTGGCACTGTTATTGTCTCCGCACGGTATTGTTGATGTCGCAGGCCACCGGATTGCCCTGAACTTTGGTTCACTaa                                                                                                             >  1:808092/1‑149 (MQ=255)
                      gAAACGACTGATTCAACTCGGTTTGCCGATTGGGCTGGCACTGTTCTTTGCAGTGACTCTGTTGGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGCCACCTGATTGCCCTGAACTTTAGTTCACTAATGt                                                                                                          >  2:474525/1‑149 (MQ=255)
                       aaaCGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTGGTTCCCTAATGtc                                                                                                         >  1:461797/1‑148 (MQ=255)
                                aTTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGATGTGATACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTcc                                                                                                <  1:351498/149‑1 (MQ=255)
                                 ttCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGCCACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCa                                                                                               >  1:704938/1‑149 (MQ=255)
                                 ttCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCa                                                                                               >  1:173076/1‑149 (MQ=255)
                                 ttCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGCTCCACGTCTTACCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCa                                                                                               <  2:428560/149‑1 (MQ=255)
                                      cTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTc                                                                                          >  2:806007/1‑149 (MQ=255)
                                       tCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAATGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCg                                                                                         <  2:299276/149‑1 (MQ=255)
                                           tttGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTgg                                                                                     <  2:117684/149‑1 (MQ=255)
                                            ttGCCGATTGCGCTGGCTCTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTATTTTTCTTGCTTCCAATGTCGCTggc                                                                                    <  1:766970/149‑1 (MQ=255)
                                            ttGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTggc                                                                                    >  1:752909/1‑149 (MQ=255)
                                                cGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCa                                                                                <  2:173076/149‑1 (MQ=255)
                                                   ttGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACAACTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCg                                                                             <  2:395404/149‑1 (MQ=255)
                                                       gcTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGGATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTGATGTTCGGGCTTCCAATGTCGCTGGCGGGAGCGGTac                                                                         >  2:65512/1‑148 (MQ=255)
                                                               tGTTCTTTGAAATAACGCTGTTTGCCGTCGTGGCTCTGTTAGTGGCTCCGCTCGGTGTTGTTTATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCGTCCAATGTCGCTGGCGGCCGCGGTAACTATCcgc                                                                 >  1:436229/1‑149 (MQ=255)
                                                               tGTTCGTTGTTGTGACTCTGTTTGCCGTGCTGGCTCTGTTAGTGTCTTCGCTCTGTATTGTTGATGTCGCAGGACACCTGCTTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCcgc                                                                 <  2:407691/149‑1 (MQ=255)
                                                                 ttCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTACCTATCCGCGt                                                               >  2:200262/1‑149 (MQ=255)
                                                                     ttGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGt                                                           >  2:351363/1‑149 (MQ=255)
                                                                        aaGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGCCACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGCCGCTGGCGGCAGCGGTAACTATCCGCGTCGGTTAt                                                        >  2:624834/1‑149 (MQ=255)
                                                                               acTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTgg                                                 <  2:393456/149‑1 (MQ=255)
                                                                                        cgccgtGGCTCCGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCt                                        <  1:541944/146‑1 (MQ=255)
                                                                                         gtcgtGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGGTATCGTCTGGTTCCgggttg                                       >  2:437933/1‑146 (MQ=255)
                                                                                               gCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCCGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCt                                 >  2:789606/1‑149 (MQ=255)
                                                                                                     ttAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATgc                           >  2:290740/1‑149 (MQ=255)
                                                                                                      tcgtgtCTCCGCTCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATgcg                          <  2:109231/147‑1 (MQ=255)
                                                                                                                  tCGGTATTGTTGATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATGCGCAAACCGCTgcg              >  2:890528/1‑149 (MQ=255)
                                                                                                                          gtgcaTGTCTCATGACACCTGATTGCCCTTAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATGCGCACACCGCTGCGCGGACCgg      <  1:549133/145‑1 (MQ=255)
                                                                                                                           ttgATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATGCGCAAACCGCTGCGCGGACCggg     <  2:365189/149‑1 (MQ=255)
                                                                                                                           ttgATGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATGCGCAAACCGCTGCGCGGACCggg     <  2:365157/149‑1 (MQ=255)
                                                                                                                              aTGTCGCAGGACACCTGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTAGCAGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATGCGCAAACCGCTGCGCGGACCGGGCtt  >  2:276139/1‑149 (MQ=255)
                                                                                                                                             |                                                                                                                                     
CAAAACCCGATCCTGCGGTTATGAAACGACTGATTCAACTCGGTTTGCCGATTGCGCTGGCACTGTTCTTTGAAGTGACACTGTTTGCCGTCGTGGCTCTGTTAGTGTCTCCGCTCGGTATTGTTGATGTCGCAGGACACCAGATTGCCCTGAACTTTAGTTCACTAATGTTCGTGCTTCCAATGTCGCTGGCGGCAGCGGTAACTATCCGCGTAGGTTATCGTCTGGGTCAGGGCTCAACGCTGGATGCGCAAACCGCTGCGCGGACCGGGCTT  >  CP009273/1738396‑1738670

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: ‑