Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,143,634 Δ1 bp 7.7% coding (150/927 nt) PP_4527 ← DMT superfamily permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,143,6340G. 7.7% 161.7 / 7.0 52coding (150/927 nt)PP_4527DMT superfamily permease
Reads supporting (aligned to +/- strand):  ref base G (24/24);  new base . (2/2);  total (26/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.84e-01

CGCCGAGGTCAGTTTCAGCCCTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGACCGCGC  >  NC_002947/5143493‑5143779
                                                                                                                                             |                                                                                                                                                  
cgccgAGGTCAGTTTCAGCCCTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGc                                                                                                                                             <  2:38327/149‑1 (MQ=255)
    gAGGTCAGTTTCAGCCCTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCAtt                                                                                                                                         <  8:196691/149‑1 (MQ=255)
         cAGTTTCAGCCCTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTg‑cg                                                                                                                                     >  4:291791/1‑147 (MQ=255)
                aGCCCTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACTGC‑GCAATGGCATTGCCGCTGtgctg                                                                                                                             <  3:235183/148‑1 (MQ=255)
                aGCCCTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGtgctgc                                                                                                                            <  5:305451/149‑1 (MQ=255)
                  cccTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCtt                                                                                                                          <  3:291791/149‑1 (MQ=255)
                     ttCGGCAATGAACAGAAACTCCACCCCGAACAGCACGCCCGCCACCAGCCCTGTGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGc                                                                                                                        >  7:277621/1‑148 (MQ=255)
                         gCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCAc                                                                                                                   >  3:304146/1‑149 (MQ=255)
                              gAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGACCTGCGCGCCAGGTGCTGCCGACATGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGgcg                                                                                                              >  6:3302/1‑149 (MQ=255)
                                aCAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGTCATTG‑CGCAGTGCTGCTTGCATCACCGgcgc                                                                                                             <  4:28595/148‑1 (MQ=255)
                                 cAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGa                                                                                                           >  2:42854/1‑149 (MQ=255)
                                   gAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATg                                                                                                         >  8:216844/1‑149 (MQ=255)
                                          cACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGAcgg                                                                                                  >  3:301841/1‑149 (MQ=255)
                                                     gcccgcccGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCTGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTg                                                                                       <  1:42854/149‑1 (MQ=255)
                                                     gcccgcccGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTg                                                                                       <  4:304146/149‑1 (MQ=255)
                                                        cgcccgccACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATc                                                                                    <  3:131056/149‑1 (MQ=255)
                                                         gcccgccACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCa                                                                                   <  7:216844/149‑1 (MQ=255)
                                                         gcccgccACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCa                                                                                   <  2:207662/149‑1 (MQ=255)
                                                                    gCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCa                                                                                   >  3:70128/1‑138 (MQ=255)
                                                                    gCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCa                                                                                   <  4:70128/138‑1 (MQ=255)
                                                                          cgcgcCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTCCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGccc                                                                  >  8:285666/1‑149 (MQ=255)
                                                                                  gTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAg                                                          <  3:56020/149‑1 (MQ=255)
                                                                                       gctgACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCa                                                       >  8:43463/4‑147 (MQ=255)
                                                                                         cGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAgg                                                   >  6:325679/1‑149 (MQ=255)
                                                                                            ccTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGcc                                                 >  1:293601/1‑148 (MQ=255)
                                                                                             cTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCa                                               <  1:288734/149‑1 (MQ=255)
                                                                                                           cccGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTAcc                                       >  4:166669/1‑143 (MQ=255)
                                                                                                           cccGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTAcc                                       <  3:166669/143‑1 (MQ=255)
                                                                                                           cccGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAg                                 >  7:74038/1‑149 (MQ=255)
                                                                                                            ccGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCt                                      <  5:295351/143‑1 (MQ=255)
                                                                                                            ccGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCt                                      >  6:295351/1‑143 (MQ=255)
                                                                                                             cGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAgg                                >  7:10920/1‑148 (MQ=255)
                                                                                                                     cagcaTCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGt                       >  4:297495/1‑149 (MQ=255)
                                                                                                                     cagcaTCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGt                       <  5:325679/149‑1 (MQ=255)
                                                                                                                     cagcaTCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGt                       <  5:3302/149‑1 (MQ=255)
                                                                                                                      agcaTCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CTCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGt                                                                                 <  5:201213/90‑1 (MQ=255)
                                                                                                                      agcaTCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTc                      <  8:277621/149‑1 (MQ=255)
                                                                                                                      agcaTCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CACAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGt                                                                                 >  6:201213/1‑90 (MQ=255)
                                                                                                                        caTCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTg                    >  6:294423/1‑149 (MQ=255)
                                                                                                                          tCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTggg                  >  5:236964/1‑149 (MQ=255)
                                                                                                                            aGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGt                 <  4:301841/148‑1 (MQ=255)
                                                                                                                               ccTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCtt             >  5:197852/1‑149 (MQ=255)
                                                                                                                                     aGCACTGC‑GCAATGGCATTGCCGCTGTGCTGCTTGCATCACCGGCGCGATGTCGACGTCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGAc       >  2:158525/1‑149 (MQ=255)
                                                                                                                                     aGCACTGC‑GCAATGGCATTGCCGCTGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTgg                                                                        <  3:285695/84‑1 (MQ=25)
                                                                                                                                     aGCACTGC‑GCAATGGCATTGCCGCTGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTgg                                                                        >  4:285695/1‑84 (MQ=25)
                                                                                                                                      gCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGAcc      <  3:297495/149‑1 (MQ=255)
                                                                                                                                      gCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGAcc      <  7:285666/149‑1 (MQ=255)
                                                                                                                                      gCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGAcc      >  7:253188/1‑149 (MQ=255)
                                                                                                                                       cacaGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGGAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGACcg     <  8:253188/149‑1 (MQ=255)
                                                                                                                                       cacaGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGACcg     <  8:10920/149‑1 (MQ=255)
                                                                                                                                        acaGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGACcgc    >  5:125780/1‑149 (MQ=255)
                                                                                                                                           gCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGACCgcgc  >  3:149325/1‑148 (MQ=255)
                                                                                                                                             |                                                                                                                                                  
CGCCGAGGTCAGTTTCAGCCCTTCGGCAATGAACAGAAACTCCACCCCGAACAGCCCGCCCGCCACCAGCCCTGCGCGCCAGGTGCTGCCGACCTGCTCCCAGCCACCCCGCCAGCACAGCATCAGGCCTACCAGCACAGCGGCAATGCCATTG‑CGCAGTGCTGCTTGCATCACCGGCGCGATGTCGACGGCGGCGGTCTTGATCAGTACCTGCTGGCAGCCCCAGATCAGGCAAAGGCCCAGCATTACCTGGAAGGCAAAGGCGTCTGGGTTCTTGCGGACCGCGC  >  NC_002947/5143493‑5143779

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑