Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,392,100	T→C	intergenic (‑72/+358)	tldD ← / ← yhdP	putative peptidase/DUF3971‑AsmA2 domains protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,392,100	0	T	C	100.0%	240.0 / NA	66	intergenic (‑72/+358)	tldD/yhdP	putative peptidase/DUF3971‑AsmA2 domains protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (32/34);  total (32/34)

ACAAGTCCTGATGTTTCAGGCCGTTCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTATGTTCCGTTTGTAGGCCTGAT  >  NC_000913/3391965‑3392227                                                                                                                                        |                                                                                                                                aCAAGTCCTGATGTTTCAGGCCGTTCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCa                                                                                                                              <  1:449287/139‑1 (MQ=255)               ttCAGGCCGTTCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGt                                                                                                                >  1:396175/1‑139 (MQ=255)                        ttCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACgg                                                                                                                      <  2:304567/124‑1 (MQ=255)                        ttCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACgg                                                                                                                      >  1:304567/1‑124 (MQ=255)                            ccgcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAgg                                                                                                   <  1:728653/139‑1 (MQ=255)                              gcTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGcc                                                                                                 <  2:75438/139‑1 (MQ=255)                                tAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTg                                                                                               <  2:391671/139‑1 (MQ=255)                                tAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTg                                                                                               >  1:391671/1‑139 (MQ=255)                                          tCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGca                                                                                     <  1:618828/139‑1 (MQ=255)                                                aCCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGttt                                                                                                        <  2:840216/114‑1 (MQ=255)                                                aCCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGttt                                                                                                        >  1:840216/1‑114 (MQ=255)                                                aCCAGGTTAAGACTCATCGATTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGt                                                                               >  1:875694/1‑139 (MQ=255)                                                        aaGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGcc                                                                                                 >  2:1196012/1‑113 (MQ=255)                                                        aaGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGcc                                                                                                 <  1:1196012/113‑1 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCa                                                                                                                              <  1:439256/77‑1 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCa                                                                                                                              >  2:439256/1‑77 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTa                                                                                                                         <  2:786024/82‑1 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTa                                                                                                                         >  1:786024/1‑82 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGcac                                                                                    >  2:206994/1‑119 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGcac                                                                                    <  1:206994/119‑1 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCAt                                                                          >  2:61363/1‑129 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCAt                                                                          <  1:61363/129‑1 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACgg                                                                >  2:736751/1‑139 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACgg                                                                >  1:85856/1‑139 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACgg                                                                <  1:736751/139‑1 (MQ=255)                                                               aTCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACgg                                                                >  1:484617/1‑139 (MQ=255)                                                                             tCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATgcggc                                                  >  2:303485/1‑139 (MQ=255)                                                                             tCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGCTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAGCGGCTGTCGGATgcggc                                                  >  2:913621/1‑139 (MQ=255)                                                                                  agttaCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTaaa                                             <  2:752855/139‑1 (MQ=255)                                                                                    ttaCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACg                                           <  1:303485/139‑1 (MQ=255)                                                                                     taCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGc                                          <  2:396175/139‑1 (MQ=255)                                                                                      aCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGc                                                                                                  >  2:101793/1‑82 (MQ=255)                                                                                      aCTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGc                                                                                                  <  1:101793/82‑1 (MQ=255)                                                                                       cTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCt                                        >  1:1049483/1‑139 (MQ=255)                                                                                        tGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGt                                                                                                      <  2:77350/76‑1 (MQ=255)                                                                                        tGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGt                                                                                                      >  1:77350/1‑76 (MQ=255)                                                                                         gCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGt                                                                               <  2:232343/98‑1 (MQ=255)                                                                                         gCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGt                                                                               >  1:232343/1‑98 (MQ=255)                                                                                         gCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCAt                                                                          <  1:1043680/103‑1 (MQ=255)                                                                                         gCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCAt                                                                          >  2:1043680/1‑103 (MQ=255)                                                                                         gCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCaa                                                                   >  2:202762/1‑110 (MQ=255)                                                                                         gCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCaa                                                                   <  1:202762/110‑1 (MQ=255)                                                                                          cAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAAGGCCCTACCCAGCCTAccg                                                                                                                      >  2:868600/1‑56 (MQ=25)                                                                                          cAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACgg                                                                                                                      <  1:868600/58‑1 (MQ=255)                                                                                           aGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATc                                    <  2:484617/139‑1 (MQ=255)                                                                                             tAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTa                                               >  2:1178649/1‑126 (MQ=255)                                                                                             tAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTa                                               <  1:1178649/126‑1 (MQ=255)                                                                                              agagGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACgg                                                                <  1:538255/108‑1 (MQ=255)                                                                                              agagGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACgg                                                                >  2:538255/1‑108 (MQ=255)                                                                                              agagGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATCCGa                                 >  1:569712/1‑139 (MQ=255)                                                                                                agGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATCCGAcc                               >  1:74041/1‑139 (MQ=255)                                                                                                  gATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCg                                                                                                            >  2:364841/1‑60 (MQ=255)                                                                                                  gATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCg                                                                                                            <  1:364841/60‑1 (MQ=255)                                                                                                  gATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGcac                                                                                    >  1:632597/1‑84 (MQ=255)                                                                                                  gATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGcac                                                                                    <  2:632597/84‑1 (MQ=255)                                                                                                  gATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAATGGCTGTCGGATGCGGCGTaa                                              <  2:306200/122‑1 (MQ=255)                                                                                                  gATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAATGGCTGTCGGATGCGGCGTaa                                              >  1:306200/1‑122 (MQ=255)                                                                                                  gATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATCCGACCTa                             <  2:74041/139‑1 (MQ=255)                                                                                                            ggCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGca                                                                                     >  2:107214/1‑73 (MQ=255)                                                                                                            ggCTGCCGGATGCGGCGTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGca                                                                                     <  1:107214/73‑1 (MQ=255)                                                                                                                       gcggcgTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTATGTTCCGTTTGTAgg        <  2:85856/139‑1 (MQ=255)                                                                                                                          gcgTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAgg                                                                                                   >  1:1077608/1‑45 (MQ=255)                                                                                                                          gcgTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAgg                                                                                                   <  2:1077608/45‑1 (MQ=255)                                                                                                                           cgTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTa                                                                                                     <  2:941919/42‑1 (MQ=255)                                                                                                                           cgTGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTa                                                                                                     >  1:941919/1‑42 (MQ=255)                                                                                                                             tGAACGCCCTACCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTATGTTCCGTTTGTAGGCCTGAt  <  1:955465/139‑1 (MQ=255)                                                                                                                                        |                                                                                                                                ACAAGTCCTGATGTTTCAGGCCGTTCGCCGCTAGCAATTGTTCACTTACCAGGTTAAGACTCATCGTTTTTGCTACTCGTTAGTTACTGCAGTAGAGGATTTTTTACGGCTGCCGGATGCGGCGTGAACGCCCTATCCAGCCTACGGTTATGTTCCGGTTTGTAGGCCTGATAAGACGCACAGCGTCGCATCAGGCAACGGCTGTCGGATGCGGCGTAAACGCCTTATCCGACCTACGGTTATGTTCCGTTTGTAGGCCTGAT  >  NC_000913/3391965‑3392227

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑