Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,266,127	C→T	*313* (TAG→TAA)	tdcA ←	tdc operon transcriptional activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,266,127	0	C	T	100.0%	211.7 / NA	65	*313* (TAG→TAA)	tdcA	tdc operon transcriptional activator
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (35/30);  total (35/30)

ATCAATAGCAACCGGCAGATCGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAACTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACCGCGGCATATTGTGCCAC  >  NC_000913/3265993‑3266258                                                                                                                                        |                                                                                                                                    atcaATAGCAACCGGCAGATCGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAAtaattaac                                                                                                                                 >  2:105527/1‑139 (MQ=255)         cAACCGGCAGATCGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCt                                                                                                                         <  1:105527/139‑1 (MQ=255)           aCCGGCAGATCGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTAt                                                                                                                       >  2:918013/1‑139 (MQ=255)            ccGGCAGATCGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTAtt                                                                                                                      >  2:176746/1‑139 (MQ=255)                agattCGAATGTAATAGGAATAAT‑AAACCTCCTTGCCTTAAATAAAAATTTTGGTTACCCGAACCCAACACC‑GGAAGGCAGGCCAGTTGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTg                                                                                                                 <  1:890544/135‑1 (MQ=255)                    tCGTATCTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCt                                                                                                              <  2:595151/139‑1 (MQ=255)                     cGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCtt                                                                                                             <  1:176746/139‑1 (MQ=255)                     cGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCtt                                                                                                             <  1:745111/139‑1 (MQ=255)                      gTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTaa                                                                                                                    <  2:336250/131‑1 (MQ=255)                      gTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTaa                                                                                                                    >  1:336250/1‑131 (MQ=255)                        aTGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGt                                                                                                          >  1:291051/1‑139 (MQ=255)                         tGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTc                                                                                                         <  1:41632/139‑1 (MQ=255)                             atatGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTaca                                                                                                     >  2:752590/1‑139 (MQ=255)                             atatGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTaca                                                                                                     <  2:291051/139‑1 (MQ=255)                              tatGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    <  2:997340/139‑1 (MQ=255)                              tatGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    <  1:927931/139‑1 (MQ=255)                                tGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTa                                                                                                       <  2:470122/134‑1 (MQ=255)                                tGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTa                                                                                                       >  1:470122/1‑134 (MQ=255)                                  cATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    >  1:596120/1‑135 (MQ=255)                                  cATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    <  2:596120/135‑1 (MQ=255)                                          aaCCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGAt                                                                                        >  2:631241/1‑139 (MQ=255)                                             ctctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGaa                                                                                     <  1:752590/139‑1 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGcc                                                                                                               >  2:810936/1‑111 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGcc                                                                                                               <  1:810936/111‑1 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    >  2:89454/1‑122 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    <  1:89454/122‑1 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATa                                                                                   >  1:26698/1‑139 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATa                                                                                   >  2:828853/1‑139 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATa                                                                                   >  2:340208/1‑139 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATa                                                                                   >  1:445189/1‑139 (MQ=255)                                               ctTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATa                                                                                   >  1:643701/1‑139 (MQ=255)                                                 tCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATAct                                                                                 >  2:438739/1‑139 (MQ=255)                                                                  gTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    <  1:628080/103‑1 (MQ=255)                                                                  gTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    >  2:628080/1‑103 (MQ=255)                                                                  gTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTccacc                                                                >  1:656493/1‑139 (MQ=255)                                                                  gTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTccacc                                                                >  2:539082/1‑139 (MQ=255)                                                                    aGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAAAAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCaa                                                              >  2:412887/1‑139 (MQ=255)                                                                         aaccgtaaccgACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAAcc                                                          >  1:914345/1‑139 (MQ=255)                                                                            cgtaaccgACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGAt                                                       <  1:631241/139‑1 (MQ=255)                                                                            cgtaaccgACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGAt                                                       >  1:674199/1‑139 (MQ=255)                                                                            cgtaaccgACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGAt                                                       >  1:264009/1‑139 (MQ=255)                                                                              taaccgACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGAtgc                                                     <  1:340208/139‑1 (MQ=255)                                                                                 ccgACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGAtgctgc                                                  >  1:1012595/1‑139 (MQ=255)                                                                                      acCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGcc                                                                                                               <  1:564321/73‑1 (MQ=255)                                                                                      acCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGcc                                                                                                               >  2:564321/1‑73 (MQ=255)                                                                                      acCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    <  1:423019/84‑1 (MQ=255)                                                                                      acCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTacac                                                                                                    >  2:423019/1‑84 (MQ=255)                                                                                      acCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCttttt                                             >  1:964333/1‑139 (MQ=255)                                                                                      acCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCttttt                                             >  1:252481/1‑139 (MQ=255)                                                                                       ccTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCtttttt                                            <  1:828853/139‑1 (MQ=255)                                                                                        cTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATtat                                                                                             >  1:412360/1‑89 (MQ=255)                                                                                        cTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATtat                                                                                             <  2:412360/89‑1 (MQ=255)                                                                                                  gacagGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAAt                                 >  1:179582/1‑139 (MQ=255)                                                                                                    cagGTGGATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAAttt                               <  1:918013/139‑1 (MQ=255)                                                                                                          gATTATTTATGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGAc                         >  2:808529/1‑139 (MQ=255)                                                                                                               tttatGTTGAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTGTTCGACCATAc                    >  1:686011/1‑139 (MQ=255)                                                                                                                 tatGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAGAACCGAtgctg                                                   >  1:939179/1‑106 (MQ=255)                                                                                                                 tatGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAGAACCGAtgctg                                                   <  2:939179/106‑1 (MQ=255)                                                                                                                   tGTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACcgcg                <  2:252481/139‑1 (MQ=255)                                                                                                                    gTTTAAATAAAAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACCGCgg               >  1:187148/1‑139 (MQ=255)                                                                                                                         aataaaAACAAATAATTAACCAACTTCTATTAATTACCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGAtgctg                                                   <  2:795081/98‑1 (MQ=255)                                                                                                                         aataaaAACAAATAATTAACCAACTTCTATTAATTACCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGAtgctg                                                   >  1:795081/1‑98 (MQ=255)                                                                                                                          ataaaAACAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACCGCGGCATAtt         <  2:674199/139‑1 (MQ=255)                                                                                                                                aCAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACCGCGGCATATTGTGCca   <  2:264009/139‑1 (MQ=255)                                                                                                                                aCAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACCGCGGCATATTGTGCca   <  2:26698/139‑1 (MQ=255)                                                                                                                                 cAAATAATTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACCGCGGCATATTGTGCcac  <  2:914345/139‑1 (MQ=255)                                                                                                                                        |                                                                                                                                    ATCAATAGCAACCGGCAGATCGTATGTAATATGCATTATAAAACCTCTTCGCCTGAATTAAATATGTAGG‑TAACCGTAACCGACACCTGCAAGACAGACAGGTGGATTATTTATGTTTAAATAAAAACAAATAACTAACCAACTTCTATTAATTGCCTTCGTCTACACCCATTATAAGATGAATACTCTTTGGCTAATTCCACCAAAACCGATGCTGCTTTTTTAATACGATAATTTTTCGACCATACCGCGGCATATTGTGCCAC  >  NC_000913/3265993‑3266258

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑