Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	499,203	A→G	intergenic (+47/‑249)	uhpA → / → PP_0411	two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	499,203	0	A	G	100.0%	172.3 / NA	51	intergenic (+47/‑249)	uhpA/PP_0411	two‑component system response regulator UhpA/polyamine ABC transporter ATP‑binding protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (20/31);  total (20/31)

CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGC  >  NC_002947/499057‑499332                                                                                                                                                   |                                                                                                                                   cAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCggg                                                                                                                                  >  2:347816/1‑149 (MQ=255)      ccATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGc                                                                                                                            <  4:159408/149‑1 (MQ=255)      ccATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGc                                                                                                                            <  2:3636/149‑1 (MQ=255)       cATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGcc                                                                                                                           >  6:109670/1‑149 (MQ=255)       cATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGcc                                                                                                                           >  2:250264/1‑149 (MQ=255)        aTCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGccc                                                                                                                          <  3:334277/149‑1 (MQ=255)           aGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CCTTCCcgc                                                                                                                        >  1:93315/1‑148 (MQ=255)              aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGTCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAAc                                                                                                                    <  1:176401/149‑1 (MQ=255)              aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAAc                                                                                                                    >  6:322860/1‑149 (MQ=255)                ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACgg                                                                                                                  >  8:367560/1‑149 (MQ=255)                ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACgg                                                                                                                  >  6:3557/1‑149 (MQ=255)                ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACgg                                                                                                                  >  2:131783/1‑149 (MQ=255)                    aaGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAAGAggccg                                                                                                              >  7:104983/1‑148 (MQ=255)                     aGGCACGGCTGATGCAGAACTTGAAAGTGAACTCGCTGGCGGTGCTGGTGAAGTACGCCATGGAGCACAATCTGATCTGATTGCTACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGggcctg                                                                                                             <  8:253271/149‑1 (MQ=255)                      ggCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGgccctgg                                                                                                            >  5:313722/1‑149 (MQ=255)                       gCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGggcctggc                                                                                                           <  3:259026/149‑1 (MQ=255)                         aCGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCCATACCCCCGAACggccatgc                                                                                                            >  3:388251/1‑141 (MQ=255)                          cGCCTGATGCAGAAGTTGAACGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGgcctggcctg                                                                                                        <  7:320043/149‑1 (MQ=255)                          cGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGgcctggcctg                                                                                                        <  7:200030/149‑1 (MQ=255)                                aTGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGAt                                                                                                   <  8:155976/148‑1 (MQ=255)                                 tGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGAtct                                                                                                 <  1:250264/149‑1 (MQ=255)                                    aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATctct                                                                                               >  8:15079/1‑148 (MQ=255)                                    aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATctct                                                                                               <  7:15079/148‑1 (MQ=255)                                    aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTa                                                                                              <  1:131783/149‑1 (MQ=255)                                     gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                             <  5:3557/149‑1 (MQ=255)                                     gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                             <  5:109670/149‑1 (MQ=255)                                           gAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATTCCCCCGAACCGGCCTGGCCGGCTGATCTCTATTGCt                                                                                         >  1:218333/1‑147 (MQ=255)                                                tGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCgg                                                                                  <  5:337423/149‑1 (MQ=255)                                                  aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCTACATACGGGTGCCCTAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCTAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGcc                                                                                <  3:44364/149‑1 (MQ=255)                                                     tCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATAGGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCctgct                                                                                                      <  4:254501/124‑1 (MQ=255)                                                     tCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGAGGG‑CATGCCCGCGAACGGGCCTGGCctgct                                                                                                      >  3:254501/1‑124 (MQ=255)                                                       gCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCctct                                                                             <  1:347816/147‑1 (MQ=255)                                                           gCGGAGGTGGGGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                       <  8:72743/149‑1 (MQ=255)                                                           gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                       <  1:137251/149‑1 (MQ=255)                                                                     tGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGCGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGc                                                                 <  3:8264/145‑1 (MQ=255)                                                                     tGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCGGGCCTGGTGATGGCTATGGCTGAGCCGGCCTCGTCGCGGGCAGGccag                                                              >  4:8264/1‑146 (MQ=255)                                                                      gAAGTACGCCATGGAGCCCAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGGACCGGCCGTGCCAGCTGATATATATGGGAGAGCCCGCCACATAGCCGGCCTGccccc                                                             >  5:118636/1‑146 (MQ=255)                                                                        aGTACGCCATGGAGCACAAGCTTATCTTATTGCCACATACGGGTGCCCTAAACTTCCCCAACCCTATGTGGGAGCGGG‑CATGCCCGCTAACGGGCCTGGCCTGGTGATCTCTATGGCTTAGCCGGCCTCTTCGCGGGCATGCCCGCTcc                                                          <  2:290588/149‑1 (MQ=255)                                                                             gCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                 <  6:16895/121‑1 (MQ=255)                                                                             gCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                 >  5:16895/1‑121 (MQ=255)                                                                                               atctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGcc                                                                                    >  2:289523/1‑100 (MQ=255)                                                                                               atctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGcc                                                                                    <  1:289523/100‑1 (MQ=255)                                                                                               atctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCACTTCGCGGGGATGCCCGCGCCCACAGGTTTCGTGGTTGGCTCg                                    >  6:288924/1‑148 (MQ=255)                                                                                                         gACATACGGGTGCCCTAAACTTGCCGACGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTc                         <  1:50217/149‑1 (MQ=255)                                                                                                         gACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTc                         <  7:367560/149‑1 (MQ=255)                                                                                                           cATAGGGGTGCCCAAAACTTGCCTACGCCTTTGTGGGCGGGGG‑CAGGCCGGCTAAGGGGCCTGGCGTGTTGATCTCTATGGCTGCGCCGGCCTCTTCGGGGGCTTGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTc                         <  2:218333/147‑1 (MQ=255)                                                                                                                       ccaaaCTTGCCGACGCCTATGGGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATcc           <  5:288924/147‑1 (MQ=255)                                                                                                                       cGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑GCTTCCCGCGAACGGGGCGGGCCGGGGGATGTCTATGGCTGAGCCGGCCTCATCGCGGGGCTTCCCGCGGCCACAGGGTTCGGGGTTGGGGGGGCAGGGCTTTGCCATACCGCCATcc           >  2:256188/1‑149 (MQ=255)                                                                                                                       cGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCGAACGGGCCTGGCCTGCTAATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATcc           <  5:322860/149‑1 (MQ=255)                                                                                                                                ccGACGCCTATGTGGGCGGGGG‑CATGCCGGCTAACGGGCCTGGCGTGCTTATCTCTATGGCTGAGCCGGCCTCTTCGCGGGAATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGc  <  2:93315/149‑1 (MQ=255)                                                                                                                                       cTATGTGGGAGCGAG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTc                                                >  2:179150/1‑96 (MQ=255)                                                                                                                                       cTATGTGGGAGCGAG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTc                                                <  1:179150/96‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                   CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGG‑CATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGC  >  NC_002947/499057‑499332

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑