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%	158.4 / NA	47	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 (25/22);  total (25/22)

CCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCT  >  NC_002947/499062‑499339                                                                                                                                              |                                                                                                                                           ccATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CCTGc                                                                                                                                    >  7:231066/1‑149 (MQ=255)     cAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCCATGcccc                                                                                                                                 >  3:168946/1‑148 (MQ=255)       gCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCcgc‑g                                                                                                                              >  5:303462/1‑148 (MQ=255)         aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAAc                                                                                                                           >  5:223825/1‑149 (MQ=255)          cccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACg                                                                                                                          <  2:234106/149‑1 (MQ=255)           ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CAATCCCCC‑GAAccg                                                                                                                         >  2:235267/1‑147 (MQ=255)               aaGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGggcct                                                                                                                     >  4:201340/1‑149 (MQ=255)                       ccTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCctgct                                                                                                             <  7:212283/149‑1 (MQ=255)                       ccTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCctgc                                                                                                              <  5:164020/148‑1 (MQ=255)                       ccTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCctgc                                                                                                              >  6:164020/1‑148 (MQ=255)                          gATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGggcct                                                                                                                     <  5:253330/138‑1 (MQ=255)                          gATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGggcct                                                                                                                     >  6:253330/1‑138 (MQ=255)                             gCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGACTGGCCTGCTGAtctc                                                                                                       >  7:169178/1‑149 (MQ=255)                              cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGAtctc                                                                                                       >  4:282326/1‑148 (MQ=255)                              cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGAtctc                                                                                                       <  6:3167/148‑1 (MQ=255)                               aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACCGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTCGCCTGCTGATCTCTa                                                                                                     >  6:335159/1‑149 (MQ=255)                                gAAGTTGAAAGTGAACTCGCTGGCGGAGCGGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTAt                                                                                                    <  3:201340/149‑1 (MQ=255)                                 aaGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATg                                                                                                   <  3:176102/149‑1 (MQ=255)                                 aaGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CAATACCGC‑CAACCGGCCACTCCAGCTGATATCTATg                                                                                                   >  3:24792/1‑149 (MQ=255)                                 aaGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCACGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATg                                                                                                   >  5:101364/1‑149 (MQ=255)                                   gTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGc                                                                                                 <  2:279833/149‑1 (MQ=255)                                         aGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGcc                                                                                           <  3:282326/149‑1 (MQ=255)                                          gTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGTG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCg                                                                                          <  5:326794/149‑1 (MQ=255)                                                  gCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATTGCTGAGCCGGCCTCTTc                                                                                  >  8:16841/1‑149 (MQ=255)                                                      gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                              <  4:130474/149‑1 (MQ=255)                                                       cGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGGGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCggg                                                                             <  7:164250/149‑1 (MQ=255)                                                           gCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATg                                                                         <  6:223825/149‑1 (MQ=255)                                                              ggTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCAGC‑GAACGGGACTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCACCGGCATGccc                                                                      >  5:271104/1‑149 (MQ=255)                                                               gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATTCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATTGCTGAGCCGGCCTCATAGCGGGCATGCCCg                                                                     >  2:5488/1‑149 (MQ=255)                                                                          cATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGACCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGt                                                          >  4:203213/1‑149 (MQ=255)                                                                          cATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCCC‑GCACCGGCCAGGCCGGCGGATATCTATTGCTGAGCCGGCCGCTTAGCGGGCCAGCCCGCACCcccacgg                                                          >  3:27078/1‑146 (MQ=255)                                                                            tGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CAATCCCGC‑CCACCGGCCAGGCCGTCTGATCAATAATGGTGGGCCCGCCACTTACCCGGCATTCCCGCGACCACAGGtt                                                         >  8:187895/1‑148 (MQ=255)                                                                               aGCACAAGCTTATCTTATTGCGACTTACGGGGGCCCGAAACTTGCCGAAGCTTATGTGGGAGCGGG‑CATGCCCGC‑TAACGGGCCTGGCCTGCTTATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGt                                                     <  6:101364/149‑1 (MQ=38)                                                                                gcaataGCTTATCTGATTGCGACATACGGTTGCCCGAAACTTGCCGACGCCTATGTGGGAGCGGG‑CATGCCCGC‑TAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCGGGCCTCTTCGCGGGCTTGCCCGCTCCCACAGGTTTCGTg                                                    <  6:303462/144‑1 (MQ=38)                                                                                 cacaAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGCTCCGGCCTCTTCCCCGGCAAGCCCGCTCCCACACGTTTAGTgg                                                   >  7:18174/1‑149 (MQ=255)                                                                                      gCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACCGGCCTTGCCAGCTGAAATCTAAGGCTGAGCCGGCCACTTCGCGGGCAAGCCCGCTCCCACAGGTTTCGTGGTTgg                                               >  3:96815/1‑148 (MQ=255)                                                                                       cttatctgatTGCGACATACGGGTGACCGAAACTTGCCCAAGCCTATGTGGGAGCGGG‑ATTGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGACCTCTTCGCGGGAATGCCCGCTCCCACAGGTTTCTTGGTTGGCt                                             <  6:168993/146‑1 (MQ=255)                                                                                         gatctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCg                                           >  6:79704/1‑149 (MQ=255)                                                                                             tgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCggg                                                                             <  8:33115/111‑1 (MQ=255)                                                                                               ttgggtaCATTCGTGTGCCCTAAAGTTCCCTATGCTTTTGTGGGAGCGGG‑ATTGCCCGC‑TATGGGGCGTGGCTTGTTTTTCTCTTTGGGTTAGCGGGCCTCTTCGGGTGAATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAgg                                      <  8:18174/142‑1 (MQ=255)                                                                                                   cGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCGGGCCTGCTGATCTCTATGGCTGACCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCAtt                                 <  3:203213/149‑1 (MQ=255)                                                                                                          cGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATg                                                                         >  4:289803/1‑102 (MQ=255)                                                                                                          cGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATg                                                                         <  3:289803/102‑1 (MQ=255)                                                                                                              tGCCCGAACCTTGCCGCAGCCTATGGGGGCGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTCTGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGcc                      <  1:233954/149‑1 (MQ=38)                                                                                                                  cgatagttGCCTATGCGTTTGTGGGAGGGGG‑CATGCCGGC‑TATGGGGCGTGGGATGCTTATCTATTTGGCTTAGCGGGCCTTTTCGGGGGATTGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATcc                  <  4:24792/143‑1 (MQ=255)                                                                                                                     aaCTTGCCGAAGCCTATGTGGGAGCGGG‑CATGCCCGCAGAACGGGCCTGGCCTGCTGATCTCTATGGCGGAGCCGGCCTCTTCGCGGGCCTGCCCGCTCCca                                                               >  1:59895/1‑102 (MQ=38)                                                                                                                                   tATGTGGGAGCGGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCt  >  5:156449/1‑148 (MQ=255)                                                                                                                                              |                                                                                                                                           CCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGG‑CATGCCCGC‑GAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCT  >  NC_002947/499062‑499339

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: ‑