Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,088,236	G→A	A540A (GCC→GCT)	frvR ←	putative transcriptional regulator FrvR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,088,236	0	G	A	100.0%	181.8 / NA	52	A540A (GCC→GCT)	frvR	putative transcriptional regulator FrvR
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (30/22);  total (30/22)

CAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCGGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATGGCGAGGCGATTAACAATCAG  >  NC_000913/4088103‑4088370                                                                                                                                      |                                                                                                                                       caGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAg                                                                                                                                  <  2:434561/140‑1 (MQ=255)  aGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAgg                                                                                                                                 <  2:961644/140‑1 (MQ=255)    ttCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCg                                                                                                                               >  1:403315/1‑140 (MQ=255)     tCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGa                                                                                                                              <  2:403315/140‑1 (MQ=255)       aCCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATc                                                                                                                            <  2:431468/140‑1 (MQ=255)            ttGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGAt                                                                                                                             >  1:1027558/1‑134 (MQ=255)            ttGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGAt                                                                                                                             <  2:1027558/134‑1 (MQ=255)            ttGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGAc                                                                                                                       >  1:1106392/1‑140 (MQ=255)             tgtgAAGTAACTCCATAAATGCCTCATATCCTGTTAA‑CCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACAt                                                                                                                     <  2:871684/140‑1 (MQ=255)              gtgAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACAt                                                                                                                     >  2:411260/1‑140 (MQ=255)                    tAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTaa                                                                                                               <  2:384303/140‑1 (MQ=255)                      aCTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATg                                                                                                             >  1:947744/1‑140 (MQ=255)                       cTCCATAAATGCCTCATCTCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGCCGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGa                                                                                                            <  2:1026317/140‑1 (MQ=255)                       cTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGa                                                                                                            <  2:947744/140‑1 (MQ=255)                          cATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTATCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACtt                                                                                                         <  2:1144801/140‑1 (MQ=255)                               aTGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTa                                                                                                    <  2:1106392/140‑1 (MQ=255)                                  ccTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTc                                                                                                 >  1:658394/1‑140 (MQ=255)                                    tCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCAc                                                                                               >  1:1084927/1‑140 (MQ=255)                                    tCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCAc                                                                                               <  1:127115/140‑1 (MQ=255)                                         ttccgTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAATTGATGTCGCGTATCGGTGGCGGCGCAGGCGATCAAGACATGGTTAATGACATCGTTATTCACATCaa                                                                                          <  2:895859/136‑1 (MQ=255)                                             gTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTgg                                                                                      >  2:363030/1‑140 (MQ=255)                                              ttAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTAtt                                                                                                  >  1:691852/1‑127 (MQ=255)                                              ttAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTAtt                                                                                                  <  2:691852/127‑1 (MQ=255)                                                aaCCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTg                                                                                   <  2:1084927/140‑1 (MQ=255)                                                aaCCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTg                                                                                   >  2:938882/1‑140 (MQ=255)                                                 aCCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGATTgg                                                                                  >  2:307458/1‑140 (MQ=255)                                                   ccGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGc                                                                                >  2:278746/1‑140 (MQ=255)                                                     ggCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGa                                                                              <  2:658394/140‑1 (MQ=255)                                                     ggCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGa                                                                              >  1:398349/1‑140 (MQ=255)                                                      gCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAg                                                                             >  2:1069660/1‑140 (MQ=255)                                                                ccgccgGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATaaaa                                                                   >  1:426309/1‑140 (MQ=255)                                                                  gccgGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATaaaaaa                                                                 >  1:1141278/1‑140 (MQ=255)                                                                            gACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGaaaa                                                       <  1:1082293/140‑1 (MQ=255)                                                                                   tatGCTTGCCAGACAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCt                                                >  1:745493/1‑140 (MQ=255)                                                                                    atGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTc                                               <  2:971193/140‑1 (MQ=255)                                                                                     tGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTcc                                              >  1:622552/1‑140 (MQ=255)                                                                                         tGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGtt                                          <  1:1069660/140‑1 (MQ=255)                                                                                           ccAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCg                                        >  1:563664/1‑140 (MQ=255)                                                                                           ccAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCg                                        >  1:734276/1‑140 (MQ=255)                                                                                           ccAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTAAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGAAATAAAAAATCCACGAAAACGTCGCCCCTGTTCg                                        >  2:534284/1‑140 (MQ=255)                                                                                               aTAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTcc                                    >  1:308839/1‑140 (MQ=255)                                                                                                   cTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGtt                                          >  2:1119922/1‑130 (MQ=255)                                                                                                   cTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGtt                                          <  1:1119922/130‑1 (MQ=255)                                                                                                   cTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCa                                <  2:734276/140‑1 (MQ=255)                                                                                                   cTAAATATTTTTAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCa                                >  1:227817/1‑140 (MQ=255)                                                                                                             ttAGCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATg                      >  1:632173/1‑140 (MQ=255)                                                                                                                gCTCATGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATggcg                   <  2:398349/140‑1 (MQ=255)                                                                                                                    aTGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAAt                              >  1:29866/1‑125 (MQ=255)                                                                                                                    aTGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAAt                              <  2:29866/125‑1 (MQ=255)                                                                                                                     tGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATggcgaggcg              >  2:1120981/1‑140 (MQ=255)                                                                                                                     tGACGCGCATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATggcgaggcg              >  1:492224/1‑140 (MQ=255)                                                                                                                           gcATCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATGGCGAGGCTATTAAc        >  1:859513/1‑140 (MQ=255)                                                                                                                              tCGGCGGCAGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATGGCGAGGCGATTAACAAt     >  1:387471/1‑140 (MQ=255)                                                                                                                               cggcggcagCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATGGCGAGGCTATTAACAATc    <  2:859513/140‑1 (MQ=255)                                                                                                                               cggcggcagCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATGGCGAGGCGATTAACAATc    <  2:227817/140‑1 (MQ=255)                                                                                                                                 gcggcagcgCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATGGCGAGGCGATTAACAATCAg  <  1:363030/140‑1 (MQ=255)                                                                                                                                      |                                                                                                                                       CAGTTCACCCCTTGTGAAGTAACTCCATAAATGCCTCATATCCTGTTAACCCGGCAATAATCTCCGCCGGATGCTGACACAATATGCTTGCCAGATAGCTAAATATTTTTAGCTCATGACGCGCATCGGCGGCGGCGCAGGCGATCAAGACATGGTTAATGACTTCGTTATTCACCTCAACTGGTTGGGCGAGGGTAATAAAAAATCCACGAAAACGTCGCTCCTGTTCGCTCCAGCAATGTGGGATGGCGAGGCGATTAACAATCAG  >  NC_000913/4088103‑4088370

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑