Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	357,791	C→T	*300* (TAG→TAA)	cynR ←	transcriptional activator of cyn operon, autorepressor

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	357,791	0	C	T	100.0%	197.7 / NA	67	*300* (TAG→TAA)	cynR	transcriptional activator of cyn operon, autorepressor
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (35/32);  total (35/32)

CGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGG  >  NC_000913/357659‑357920                                                                                                                                     |                                                                                                                                  cGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGt                                                                                                                             >  2:1241401/1‑139 (MQ=255)                            cGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCAt                                                                                                  <  1:1241401/139‑1 (MQ=255)                              gATGCGGCGTGAACGCCTTATCCGGCCTAGGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCAttt                                                                                                >  2:999806/1‑139 (MQ=255)                                   ggcgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCa                                                                                           <  1:519983/139‑1 (MQ=9)                                   ggcgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCa                                                                                           >  1:1606314/1‑139 (MQ=9)                                   ggcgTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCa                                                                                           >  2:799760/1‑139 (MQ=255)                                        gAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      <  2:1561079/139‑1 (MQ=255)                                        gAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      <  2:507364/139‑1 (MQ=9)                                        gAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      <  2:796079/139‑1 (MQ=255)                                          aCGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCAt                                                                                                  >  2:600101/1‑125 (MQ=255)                                          aCGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCAt                                                                                                  <  1:600101/125‑1 (MQ=255)                                             ccTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCAtgtg                                                                                 <  2:1386614/139‑1 (MQ=255)                                              cTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGc                                                                                >  2:807577/1‑139 (MQ=255)                                                tATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      <  2:1627092/131‑1 (MQ=255)                                                tATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      >  1:1627092/1‑131 (MQ=255)                                                 aTCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCCGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      >  1:991872/1‑130 (MQ=11)                                                 aTCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAAATCCAGCCGCTGATCCGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      <  2:991872/130‑1 (MQ=11)                                                      gCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGc                                                                        >  2:1256022/1‑139 (MQ=255)                                                       ccTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCAttt                                                                                                                    <  2:842726/94‑1 (MQ=255)                                                       ccTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCAttt                                                                                                                    >  1:842726/1‑94 (MQ=255)                                                          aCGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCa                                                                                     >  2:362045/1‑122 (MQ=255)                                                          aCGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCa                                                                                     <  1:362045/122‑1 (MQ=255)                                                           cGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGTCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      <  2:1113322/120‑1 (MQ=11)                                                           cGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      >  1:1113322/1‑120 (MQ=255)                                                           cGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGcc                                                                       >  1:104921/1‑135 (MQ=255)                                                           cGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGcc                                                                       <  2:104921/135‑1 (MQ=255)                                                              agagCACTGAACTCGTAGGCCTGATAAGTGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTcgcag                                                                <  1:1385454/139‑3 (MQ=1)                                                                agCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCgcggcg                                                              >  1:747671/1‑139 (MQ=255)                                                                agCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCgcggcg                                                              >  1:525054/1‑139 (MQ=255)                                                                     tGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      >  1:1068542/1‑110 (MQ=255)                                                                     tGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGcc                                                                                      <  2:1068542/110‑1 (MQ=255)                                                                            gTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCAt                                                                                                  <  2:555093/91‑1 (MQ=255)                                                                            gTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCAt                                                                                                  >  1:555093/1‑91 (MQ=255)                                                                                 ccTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACcg                                                                                                       <  2:805811/81‑1 (MQ=255)                                                                                 ccTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACcg                                                                                                       >  1:805811/1‑81 (MQ=255)                                                                                 ccTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTAtt                                             >  2:544969/1‑139 (MQ=255)                                                                                  cTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCAttt                                                                                                                    <  1:423725/67‑1 (MQ=255)                                                                                  cTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCAttt                                                                                                                    >  2:423725/1‑67 (MQ=255)                                                                                          cGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGAGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTccgccg                                    >  1:486956/1‑139 (MQ=255)                                                                                           gTACCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCGGCTATTTTTCcgccgc                                   >  1:1178691/1‑139 (MQ=255)                                                                                               cgcATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGcc                                                                       <  2:1535549/99‑1 (MQ=255)                                                                                               cgcATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGcc                                                                       >  1:1535549/1‑99 (MQ=255)                                                                                               cgcATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaaca                               >  1:1298680/1‑139 (MQ=255)                                                                                               cgcATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGcaaca                               >  2:1646/1‑139 (MQ=255)                                                                                                    cAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCtt                                                                     >  2:636826/1‑96 (MQ=255)                                                                                                    cAGGCAATTCCAGCCGCTGATCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCtt                                                                     <  1:636826/96‑1 (MQ=11)                                                                                                        cAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCGAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgccg                      <  1:999806/139‑1 (MQ=255)                                                                                                        cAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgccg                      <  1:799760/139‑1 (MQ=255)                                                                                                        cAATTCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAAccgccg                      <  1:1256022/139‑1 (MQ=255)                                                                                                           ttCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCcaaca                                                                                                           <  1:1559857/51‑1 (MQ=255)                                                                                                           ttCCAGCCGCAGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCcaaca                                                                                                           >  2:1559857/1‑51 (MQ=255)                                                                                                                    cAGACCTGTGTCACCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACACAACCGCCGTTCTCTCCagta          >  1:1016663/1‑139 (MQ=255)                                                                                                                     aGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCagtag         >  2:1646564/1‑139 (MQ=255)                                                                                                                     aGACCTGTGTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCagtag         >  1:1204173/1‑139 (MQ=255)                                                                                                                          tgtgTCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCg    <  1:409583/139‑1 (MQ=255)                                                                                                                            tgtCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACg                                                                                        >  2:1211603/1‑53 (MQ=255)                                                                                                                            tgtCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACg                                                                                        <  1:1211603/53‑1 (MQ=255)                                                                                                                            tgtCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGTCGTTCTCTCCAGTAGTGGCggg  <  2:1298680/139‑1 (MQ=255)                                                                                                                            tgtCAGCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCggg  <  2:747671/139‑1 (MQ=255)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGcc                                                                       >  2:1565615/1‑65 (MQ=255)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGcc                                                                       <  1:1565615/65‑1 (MQ=255)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCtt                                                                     <  2:404140/67‑1 (MQ=255)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCtt                                                                     >  1:404140/1‑67 (MQ=255)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGcagcgg                                                             <  1:1243873/75‑1 (MQ=255)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGcagcgg                                                             >  2:1243873/1‑75 (MQ=255)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCtgtagt                                           <  2:730277/93‑6 (MQ=11)                                                                                                                                 gCGGTTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCAGCGGCTGTCTGCCAGCtgtagt                                           >  1:730277/1‑88 (MQ=11)                                                                                                                                     |                                                                                                                                  CGGCTGTCTGCCAGCTGTAGTTTATGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTAGAGCACTGAACTCGTAGGCCTGATAAGCGTAGCGCATCAGGCAATTCCAGCCGCAGACCTGTGTCAGCGGCTACCGTGATTCATTTCCGCCAACAACCGCGCATTTATCCAACGCCATGTGCAAAAATGCCTTCGCGGCGGCTGTCTGCCAGCTATTTTTCCGCCGCAACAAAACCGCCGTTCTCTCCAGTAGTGGCGGG  >  NC_000913/357659‑357920

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑