Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 247,466 Δ1 bp intergenic (+5/‑171) yafL → / → rayT putative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase, TnpA(REP)

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913247,4650G.100.0% 108.7 / NA 28intergenic (+4/‑172)yafL/rayTputative lipoprotein and C40 family peptidase/RAYT REP element‑mobilizing transposase, TnpA(REP)
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (13/15);  total (13/15)

TGGGCGATGGGCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAGGACGGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACGAGCCCGCGAATATTTGCGAGCCGCTTTCCCGATATAAAACAACCTCATTGCC  >  NC_000913/247331‑247594
                                                                                                                                      |                                                                                                                                 
tGGGCGATGGGCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACgataa                                                                                                                               <  2:179539/139‑5 (MQ=255)
tGGGCGATGGGCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATGTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACgataa                                                                                                                               <  2:811531/139‑5 (MQ=255)
    caaTGGGCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACgataa                                                                                                                               >  1:365569/3‑131 (MQ=255)
    caaTGGGCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACgataa                                                                                                                               <  2:365569/133‑5 (MQ=255)
      aTGGGCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGtt                                                                                                                        >  2:123551/1‑139 (MQ=255)
          gCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGTCCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTAcg                                                                                                                    <  1:840004/139‑1 (MQ=255)
          gCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTAGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTAcg                                                                                                                    <  1:1238823/139‑1 (MQ=255)
             aTTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTAcgccg                                                                                                                 <  1:1194510/139‑1 (MQ=255)
                    gAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCgg                                                                                                          <  1:123551/139‑1 (MQ=255)
                    gAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCgg                                                                                                          <  2:36345/139‑1 (MQ=255)
                                    gCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTg                                                                                          >  1:556123/1‑139 (MQ=255)
                                     cGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCg                                                                                                           >  2:420596/1‑120 (MQ=255)
                                     cGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCg                                                                                                           <  1:420596/120‑1 (MQ=255)
                                                  aTAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAg                                                                                                       <  2:550929/112‑1 (MQ=255)
                                                  aTAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAg                                                                                                       >  1:550929/1‑112 (MQ=255)
                                                         gATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGt                                                                     <  2:1123007/139‑1 (MQ=255)
                                                            tAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAg                                                                                             >  2:1300038/1‑112 (MQ=255)
                                                            tAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAg                                                                                             <  1:1300038/112‑1 (MQ=255)
                                                                 gAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGt                                                                                                                         >  2:373105/1‑79 (MQ=255)
                                                                 gAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGt                                                                                                                         <  1:373105/79‑1 (MQ=255)
                                                                 gAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCAt                                                             >  2:763302/1‑139 (MQ=255)
                                                                        tCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGc                                                                                  <  1:937189/111‑1 (MQ=255)
                                                                        tCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGc                                                                                  >  2:937189/1‑111 (MQ=255)
                                                                        tCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACg                                                      >  2:825193/1‑139 (MQ=255)
                                                                                                     aGGATTTTGACGGAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACGAGCCCGCGAATATTTGCGAGCCGCTTTcc                         <  1:763302/139‑1 (MQ=255)
                                                                                                                 gAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCa                                                                                                               <  1:1135977/41‑1 (MQ=18)
                                                                                                                 gAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCa                                                                                                               >  2:1135977/1‑41 (MQ=18)
                                                                                                                 gAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGgc                                                                         >  1:726447/1‑79 (MQ=21)
                                                                                                                 gAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGgc                                                                         <  2:726447/79‑1 (MQ=21)
                                                                                                                 gAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCAt                                                             <  1:982536/91‑1 (MQ=255)
                                                                                                                 gAAGAGACGATTTTGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCAt                                                             >  2:982536/1‑91 (MQ=255)
                                                                                                                            tttGTAAGACGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACGAGCCCGCGAATATTTGCGAGCCGCTTTCCCGATATAAAACAACCTCATTGcc  >  1:286913/1‑139 (MQ=255)
                                                                                                                                      |                                                                                                                                 
TGGGCGATGGGCAATTTATCGAGTCGCCACGTACCGGCGAAACCATTCGGATAAGCCGATTAGCCGAACCTTTCTGGCAGGACCATTTTTTGGGCGCGCGCAGGATTTTGACGGAAGAGACGATTTTGTAGGACGGATAAGGCGTTTACGCCGCATCCGGCAGTTGTACGCAGGTGCCTGATGCGACGCTGGCGCGTCTTATCATGCCTACGAGCCCGCGAATATTTGCGAGCCGCTTTCCCGATATAAAACAACCTCATTGCC  >  NC_000913/247331‑247594

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: