Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	3,179,341	G→A	L445L (CTG→TTG)	PP_2790 ←	sigma‑54 dependent sensory box protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,179,341	0	G	A	100.0%	183.6 / NA	55	L445L (CTG→TTG)	PP_2790	sigma‑54 dependent sensory box protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (29/26);  total (29/26)

CCGGAAATACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAGGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTCCAG  >  NC_002947/3179195‑3179485                                                                                                                                                   |                                                                                                                                                 ccGGAAATACGGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGc                                                                                                                                                >  3:338874/1‑149 (MQ=255)     aaaTACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCgtgt                                                                                                                                            <  2:141218/149‑1 (MQ=255)      aaTACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGtt                                                                                                                                           <  1:240098/149‑1 (MQ=255)           agttCGGTACGGAATTCGCCTTCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAg                                                                                                                                      <  4:277298/146‑1 (MQ=255)           aGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGATGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAg                                                                                                                                      <  3:349849/149‑1 (MQ=255)                ggTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGaca                                                                                                                                 >  4:205327/1‑149 (MQ=255)                      cgcagcGCCATGGACGATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAACAAGCGTGTTTGCAGCGACACCGGCa                                                                                                                           >  4:27973/6‑149 (MQ=255)                       aaaTCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCAt                                                                                                                          >  5:148929/1‑149 (MQ=255)                       aaaTCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACAACGGCAt                                                                                                                          >  5:356851/1‑149 (MQ=255)                         aTCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGt                                                                                                                        <  6:335059/149‑1 (MQ=255)                             ccATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGc                                                                                                                            <  8:247083/141‑1 (MQ=255)                             ccATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGc                                                                                                                            >  7:247083/1‑141 (MQ=255)                                    ccATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCtcg                                                                                                             >  8:270087/1‑149 (MQ=255)                                          cgcTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAgg                                                                                                       <  2:153839/149‑1 (MQ=255)                                               cgcAGGTCCTTGTGGGTCGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCAAGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAg                                                                                                  >  4:151746/1‑149 (MQ=255)                                                 cAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCg                                                                                                >  6:201087/1‑149 (MQ=255)                                                  aGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGc                                                                                                                                     >  3:4448/1‑111 (MQ=255)                                                  aGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGc                                                                                                                                     <  4:4448/111‑1 (MQ=255)                                                  aGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGt                                                                                               >  6:37465/1‑149 (MQ=255)                                                          gtgggtggCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCcgcg                                                                                         <  6:148929/147‑1 (MQ=255)                                                            gggtggCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGgtgt                                                                                     <  7:270087/149‑1 (MQ=255)                                                                 gcggcAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGtgctgc                                                                                <  8:53227/149‑1 (MQ=255)                                                                   ggcAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCtt                                                                              >  4:235397/1‑149 (MQ=255)                                                                   ggcAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCtt                                                                              >  7:51236/1‑149 (MQ=255)                                                                       atgatgCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGaa                                                                          <  6:56492/149‑1 (MQ=255)                                                                              gcACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCt                                                                   >  4:9657/1‑149 (MQ=255)                                                                              gcACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCt                                                                   >  3:318477/1‑149 (MQ=255)                                                                                aCGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTgg                                                                 >  5:98347/1‑149 (MQ=255)                                                                                 cGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGc                                                                <  5:37465/149‑1 (MQ=255)                                                                                      aTGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGcc                                                           <  3:9657/149‑1 (MQ=255)                                                                                       tGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCa                                                          <  3:235397/149‑1 (MQ=255)                                                                                        ggCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCAc                                                         >  3:94733/1‑149 (MQ=255)                                                                                                gttcggtGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGaca                                                                                                                                 <  8:147824/69‑1 (MQ=255)                                                                                                gttcggtGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGaca                                                                                                                                 >  7:147824/1‑69 (MQ=255)                                                                                                      tgctgcCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCg                                           <  4:318477/149‑1 (MQ=255)                                                                                                           cccAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGaa                                                                          <  4:272880/113‑1 (MQ=255)                                                                                                           cccAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTg                                        >  4:23375/1‑147 (MQ=255)                                                                                                           cccAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGa                                       <  3:205327/148‑1 (MQ=255)                                                                                                            ccAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTg                                        >  6:310017/1‑146 (MQ=255)                                                                                                            ccAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGaa                                      <  5:310017/148‑1 (MQ=255)                                                                                                            ccAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAg                                     >  1:189126/1‑149 (MQ=255)                                                                                                                gcgcAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACAGCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGgcgc                                 <  6:356851/149‑1 (MQ=255)                                                                                                                gcgcAGGACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGgcgc                                 <  3:23375/149‑1 (MQ=255)                                                                                                                      gACTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCt                           >  7:348441/1‑149 (MQ=255)                                                                                                                       aCTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTc                          <  3:151746/149‑1 (MQ=255)                                                                                                                        cTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCg                         >  6:54480/1‑149 (MQ=255)                                                                                                                        cTTCGCGCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCg                         >  5:105762/1‑149 (MQ=255)                                                                                                                           cgcgCTCTTGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAg                      >  4:341008/1‑149 (MQ=255)                                                                                                                                  ttGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGc                                                                     >  2:104346/1‑95 (MQ=255)                                                                                                                                  ttGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGc                                                                     <  1:104346/95‑1 (MQ=255)                                                                                                                                  ttGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAAc                >  6:380545/1‑148 (MQ=255)                                                                                                                                  ttGCAGCACGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAAc                >  2:199783/1‑148 (MQ=255)                                                                                                                                        caCGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCAc         <  2:334998/149‑1 (MQ=255)                                                                                                                                        caCGCGCAGCAAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCAc         >  4:147740/1‑149 (MQ=255)                                                                                                                                             gcagcaAGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTcc    <  4:94733/149‑1 (MQ=255)                                                                                                                                               agcaaGCGTGTTTGCAGCGACACCGGCATGTCGCAGATCTCGTCGAGGAACAGCGTGACGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGAGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTCCAg  >  4:54274/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                 CCGGAAATACAGGTCGGTACGGAAATCGCCATCGTCCATGGCGCTGCGCAGGTCCTTGTGGGTGGCGGCAATGATGCGCACGTCGATGGCAATCGGTTCGGTGCTGCCCAGGCGCAGGACTTCGCGCTCTTGCAGCACGCGCAGCAGGCGTGTTTGCAGCGACACCGGCATGTCGCCGATCTCGTCGAGGAACAGCGTGCCGCGGTGTGCTGCTTCGAACAGGCCTGGCTTGCCACCTTTGCGCGAGCCGCTGAAGGCGCCTTCCTCGTAGCCGAACAATTCACTTTCCAG  >  NC_002947/3179195‑3179485

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑