Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,544,543 G→C 15.6% intergenic (+60/+54) mdfA → / ← ampG multidrug MFS transporter/muropeptide permease AmpG

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,544,5430GC15.6% 122.4 / 15.9 45intergenic (+60/+54)mdfA/ampGmultidrug MFS transporter/muropeptide permease AmpG
Reads supporting (aligned to +/- strand):  ref base G (20/18);  new base C (3/4);  total (23/22)
Fisher's exact test for biased strand distribution p-value = 6.99e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.71e-01

CGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCAGCGTAGG  >  NC_002947/1544398‑1544689
                                                                                                                                                 |                                                                                                                                                  
gggcggGGGTGGCGGGGGGGTTGGCGCTGTGGCCGCTGTGGTTTGAGGTCTGGTGTCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCttt                                                                                                                                                <  2:34062/149‑1 (MQ=39)
cggcggGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGAGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCttt                                                                                                                                                <  1:476952/150‑1 (MQ=255)
    ggggggggCGGGGGCGTGGGCGCGGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAg                                                                                                                                            <  2:288131/150‑1 (MQ=255)
        gTGGGGGGGGCGTCGGCGCTGAGGCCGCGGTGGTTTGTGTTGGGTGGGGGGCGTGGGGAAGGGGTTGTAGCTCGATACTCTGTATTGCCGGGGCCTGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGc                                                                                                                                        <  2:1232870/150‑1 (MQ=38)
          ggCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCTGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCgg                                                                                                                                      <  1:330153/150‑1 (MQ=25)
           gCGGGGGCGTGGGCGCTGTGGCCGCGGTGGTTTGTGGTGGGTGGGGGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCggg                                                                                                                                     <  2:370315/150‑1 (MQ=25)
                 gCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTCGCAGCGGGTTTAcc                                                                                                                               >  1:466766/1‑150 (MQ=255)
                       gagcTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGaa                                                                                                                         >  2:32068/3‑150 (MQ=255)
                         gcTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAaga                                                                                                                       >  1:1201845/1‑150 (MQ=255)
                          tgggggCCGGTGGGGTTGGTGGTGGGGGGGCGGCCGGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAagag                                                                                                                      <  2:909740/146‑1 (MQ=37)
                          cTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAagag                                                                                                                      <  2:498389/150‑1 (MQ=255)
                             tgGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCATTGTAGGAGCGGGTTTACACGCGAAGAGGcc                                                                                                                   >  1:540212/1‑150 (MQ=255)
                                        gTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCaa                                                                                                        <  1:32068/150‑1 (MQ=255)
                                        gTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCaa                                                                                                        <  1:842614/150‑1 (MQ=255)
                                             tggtggGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACaa                                                                                                   >  1:805965/1‑150 (MQ=255)
                                                                       gCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAg                                                                         >  1:698619/1‑150 (MQ=255)
                                                                            aGCTCGATACTCGGTATTCCCGGGGCCCGCTTCTTCGCGGGTAAACACGCTTCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAACAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGgtc                                                                    <  2:277988/150‑1 (MQ=37)
                                                                               tCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                                    >  2:968121/1‑99 (MQ=255)
                                                                               tCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                                    <  1:968121/99‑1 (MQ=255)
                                                                                ggATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCGGCTCTTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTcc                                                                <  2:941459/149‑1 (MQ=255)
                                                                                               ccGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTcccc                                                 <  2:466766/150‑1 (MQ=255)
                                                                                                cGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                                    >  1:910814/1‑82 (MQ=255)
                                                                                                cGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGc                                                                                                                    <  2:910814/82‑1 (MQ=255)
                                                                                                       ggccTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGc                                         >  1:520885/1‑150 (MQ=255)
                                                                                                          ctctTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAgg                                                                                                           >  1:1002908/1‑81 (MQ=255)
                                                                                                          ctctTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAgg                                                                                                           <  2:1002908/81‑1 (MQ=255)
                                                                                                             ttCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGCAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCTCTCAGCCAGCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTg                                   >  1:835821/1‑150 (MQ=255)
                                                                                                               cgcgGGTAAACCCGCTGCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGAt                                 <  2:640292/150‑1 (MQ=255)
                                                                                                               cgcgGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGAt                                 <  2:4914/150‑1 (MQ=255)
                                                                                                                    gTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCAc                            >  1:1103850/1‑150 (MQ=255)
                                                                                                                        aCCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGa                                  >  2:539095/1‑140 (MQ=255)
                                                                                                                        aCCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGa                                  <  1:539095/140‑1 (MQ=255)
                                                                                                                         cccGCTCCTACCCAGGGCCGCGCCGCTTTGTAGGAGCGGTTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTAAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAg                       >  1:540733/1‑150 (MQ=255)
                                                                                                                          ccGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCTCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAgg                      >  2:82941/1‑150 (MQ=255)
                                                                                                                          ccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGc                               >  1:346386/1‑141 (MQ=25)
                                                                                                                          ccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGc                               <  2:346386/141‑1 (MQ=25)
                                                                                                                          ccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCa                             <  2:1093966/143‑1 (MQ=25)
                                                                                                                          ccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCa                             >  1:1093966/1‑143 (MQ=25)
                                                                                                                          ccGCTCCTACAAAGCGGCGCGGCCCTGTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAgg                      >  2:209746/1‑150 (MQ=25)
                                                                                                                            gCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCATGGCCGCTCAGCCACCGAGTgg                                                                      <  1:781567/100‑1 (MQ=255)
                                                                                                                            gCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCATGGCCGCTCAGCCACCGAGTgg                                                                      >  2:781567/1‑100 (MQ=255)
                                                                                                                            gCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGc                    >  2:430186/1‑150 (MQ=255)
                                                                                                                                 tACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGCGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatca               >  2:329096/1‑150 (MQ=255)
                                                                                                                                  acacAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatcag              >  1:777660/1‑150 (MQ=255)
                                                                                                                                      aGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCgatcaggatc          >  2:725331/1‑150 (MQ=255)
                                                                                                                                         gccgcgccgcTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCACCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCAGc       <  2:1201845/150‑1 (MQ=255)
                                                                                                                                         gccgcgccgcTTTGTAGGAGAGAGTTTACGCGCGAAGAGGCCAGCACAGGCAATCAAAAGCTTCAGGGCCGCTCAGACACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCAGc       <  2:540212/150‑1 (MQ=255)
                                                                                                                                            gcgccgcTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCAGCGTa    <  2:805965/150‑1 (MQ=255)
                                                                                                                                              gccgcTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTGAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCAGCGTTgg  >  2:912449/1‑150 (MQ=255)
                                                                                                                                                 |                                                                                                                                                  
CGGCGGGGGTGGCGGGGGCGTTGGCGCTGTGGCCGCTGTGGTTTGTGGTGGGTGGGCGGCCTGGGGAAGGGGCTGTAGCTCGATAATCGGTATTGCCGGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACACAGGGCCGCGCCGCTTTGTAGGAGCGGGTTTACCCGCGAAGAGGCCAGCACAGGCAATACAAAGCTTCAGGGCCGCTCAGCCACCGAGTGGTCGTCCGCCACCGGCGTCCCCCGCCCGGCTTCCTGATGCCACTGCAGGGCGATCAGGATCAGCGTAGG  >  NC_002947/1544398‑1544689

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑