Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 4,457,250 T→A 7.3% intergenic (+92/+64) mpl → / ← yjgA UDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009134,457,2500TA 7.3% 234.4 / 7.6 69intergenic (+92/+64)mpl/yjgAUDP‑N‑acetylmuramate:L‑alanyl‑gamma‑D‑glutamyl‑ meso‑diaminopimelate ligase/ribosome‑associated UPF0307 family protein
Reads supporting (aligned to +/- strand):  ref base T (31/31);  new base A (3/2);  total (35/34)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.79e-01

CAGAAACTGCTGGATGGGCTGGCGAAGAAGGCGGAAGCCGCGCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGATTTCGGCGGCTTATTCCCTTCT  >  NC_000913/4457111‑4457389
                                                                                                                                           |                                                                                                                                           
cAGAAACTGCTGGATGGGCTGGCGAAGAAGGCGGAAGCCGCGCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTa                                                                                                                                     >  4:16065/1‑148 (MQ=255)
   aaaCTGCTGGATGGGCTGGCGAAGAAGGCGGAAGCCGCGCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCa                                                                                                                                  <  1:1094039/148‑1 (MQ=255)
             aTGGGCTGGCGAAGAAGGCGGAAGCCGCGCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATc                                                                                                                                   >  2:186059/1‑137 (MQ=255)
             aTGGGCTGGCGAAGAAGGCGGAAGCCGCGCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATc                                                                                                                                   <  1:186059/137‑1 (MQ=255)
                                      cgcgCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGt                                                                                                                <  3:297624/131‑1 (MQ=255)
                                      cgcgCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGt                                                                                                                >  4:297624/1‑131 (MQ=255)
                                        cgcAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTc                                                                                              >  3:376645/1‑147 (MQ=255)
                                        cgcAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTc                                                                                              <  4:376645/147‑1 (MQ=255)
                                             tAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTTAGCATAGTGCCTGATGCGACGCTTGATGCGTCt                                                                                                                                       >  2:565388/1‑101 (MQ=255)
                                             tAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCt                                                                                                                                       >  4:59559/1‑101 (MQ=255)
                                             tAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCt                                                                                                                                       <  3:59559/101‑1 (MQ=255)
                                             tAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCt                                                                                                                                       <  1:565388/101‑1 (MQ=255)
                                                        tAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTc                                                                                              >  2:859327/1‑131 (MQ=255)
                                                        tAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTc                                                                                              <  1:859327/131‑1 (MQ=255)
                                                        tAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAAt                                                                             >  4:1045875/1‑148 (MQ=255)
                                                            cAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTAcc                                                                         >  2:767648/1‑148 (MQ=255)
                                                            cAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTAcc                                                                         >  2:1118000/1‑148 (MQ=255)
                                                            cAGATAGAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATATTCACATCAACAACGAAAATTAcc                                                                         >  2:488983/1‑148 (MQ=255)
                                                               atatAGTATGCGTAGGCCGGATAAGGGGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCtt                                                                      <  1:488983/148‑1 (MQ=255)
                                                                       tGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTAt                                                                                                              <  3:71444/100‑1 (MQ=255)
                                                                       tGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTAt                                                                                                              >  4:71444/1‑100 (MQ=255)
                                                                        gCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCg                                                             <  3:1045875/148‑1 (MQ=255)
                                                                           tAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTa                                                          <  3:16065/148‑1 (MQ=255)
                                                                                  gATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTAt                                                                                                                                    >  4:35178/1‑67 (MQ=255)
                                                                                  gATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTAt                                                                                                                                    <  3:35178/67‑1 (MQ=255)
                                                                                   aTAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCgcgc                                                  <  1:767648/148‑1 (MQ=255)
                                                                                   aTAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCgcgc                                                  <  1:1118000/148‑1 (MQ=255)
                                                                                    tAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAAc                                                                                                     >  4:159723/1‑96 (MQ=255)
                                                                                    tAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAAc                                                                                                     <  3:159723/96‑1 (MQ=255)
                                                                                     aaGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTAc                                                                          >  2:1017424/1‑122 (MQ=255)
                                                                                     aaGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTAc                                                                          <  1:1017424/122‑1 (MQ=255)
                                                                                           ttCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAAt                                                                             >  3:996358/1‑113 (MQ=255)
                                                                                           ttCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGACGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAAt                                                                             <  4:996358/113‑1 (MQ=255)
                                                                                               cgccgcATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGt                                                                                                                                         >  3:766404/1‑49 (MQ=255)
                                                                                               cgccgcATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGt                                                                                                                                         <  4:766404/49‑1 (MQ=255)
                                                                                                 ccgcATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGc                                                            >  1:576665/1‑124 (MQ=255)
                                                                                                 ccgcATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGc                                                            <  2:576665/124‑1 (MQ=255)
                                                                                                  cgcATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTaa                                                         >  4:417821/1‑126 (MQ=255)
                                                                                                  cgcATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTaa                                                         <  3:417821/126‑1 (MQ=255)
                                                                                                  cgcATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATc                                   >  1:1117104/1‑148 (MQ=255)
                                                                                                     aTCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTtctc                                                               <  1:243117/117‑1 (MQ=255)
                                                                                                     aTCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTtctc                                                               >  2:243117/1‑117 (MQ=255)
                                                                                                       ccGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCg                              <  2:1117104/148‑1 (MQ=255)
                                                                                                          gCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACATGTGc                                                                                                                     <  1:321407/58‑1 (MQ=255)
                                                                                                          gCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGc                                                                                                                     >  2:321407/1‑58 (MQ=255)
                                                                                                          gCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACTACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCGGATACTgg                                         <  2:315804/134‑1 (MQ=255)
                                                                                                          gCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTgg                                         >  1:315804/1‑134 (MQ=255)
                                                                                                             tttGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCtt                                                                      >  3:552417/1‑102 (MQ=255)
                                                                                                             tttGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCtt                                                                      <  4:552417/102‑1 (MQ=255)
                                                                                                                   cATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACt                                                       >  2:580327/1‑111 (MQ=255)
                                                                                                                   cATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACt                                                       <  1:580327/111‑1 (MQ=255)
                                                                                                                    aTAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCg                                                                                                                 >  2:389840/1‑52 (MQ=255)
                                                                                                                    aTAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCg                                                                                                                 <  1:389840/52‑1 (MQ=255)
                                                                                                                         gCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACt                                           >  3:50737/1‑117 (MQ=255)
                                                                                                                         gCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACt                                           <  4:50737/117‑1 (MQ=255)
                                                                                                                          ccTGATAAGACGCATCAAGCGTCGCATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTa                                                                           >  1:23814/1‑84 (MQ=21)
                                                                                                                          ccTGATAAGACGCATCAAGCGTCGCATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTa                                                                           <  2:23814/84‑1 (MQ=21)
                                                                                                                               taagACGCATCAAGCGTCGCATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTgg                                         <  1:84000/110‑1 (MQ=255)
                                                                                                                               taagACGCATCAAGCGTCGCATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTgg                                         >  2:84000/4‑113 (MQ=255)
                                                                                                                               taagACGCATCAAGCGTCGCATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGATTTCGGCGGCTTCTTccc      >  2:755323/4‑148 (MQ=255)
                                                                                                                                   aCGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACt                                                                                               <  4:568418/55‑1 (MQ=255)
                                                                                                                                   aCGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACt                                                                                               >  3:568418/1‑55 (MQ=255)
                                                                                                                                   aCGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCt                                  <  3:614008/116‑1 (MQ=255)
                                                                                                                                   aCGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCt                                  >  4:614008/1‑116 (MQ=255)
                                                                                                                                   aCGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGATTTCGGCGGCTTATTCCcttct  >  4:631960/1‑148 (MQ=255)
                                                                                                                                   aCGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGATTTCGGCGGCTTATTCCcttc   <  2:197870/147‑1 (MQ=255)
                                                                                                                                   aCGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGATTTCGGCGGCTTATTCCcttc   >  1:197870/1‑147 (MQ=255)
                                                                                                                                        tGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGAttt                     <  4:58188/124‑1 (MQ=255)
                                                                                                                                        tGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGAttt                     >  3:58188/1‑124 (MQ=255)
                                                                                                                                           |                                                                                                                                           
CAGAAACTGCTGGATGGGCTGGCGAAGAAGGCGGAAGCCGCGCAGTAATTCGGCCTTAGCCAGATATAGTATGCGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTGAGCATAGTGCCTGATGCGACGCTTGATGCGTCTTATCAGGCCTACAGGTGCACCGTATCCGGCAAACCATACTCACATCAACAACGAAAATTACCCTTCGTTCTCCGCTAACTCGCGCAGATACTGGAAAATCTGGCGTGCGGATTTCGGCGGCTTATTCCCTTCT  >  NC_000913/4457111‑4457389

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑