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%	156.7 / NA	48	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 (24/24);  total (24/24)

CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGC  >  NC_002947/499057‑499332                                                                                                                                                   |                                                                                                                                    cAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCggg                                                                                                                                   >  5:114413/1‑149 (MQ=255)  aaGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                  <  3:332909/149‑1 (MQ=255)   aGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCa                                                                                                                                 <  3:240508/149‑1 (MQ=255)       cATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGTCATGcc                                                                                                                             >  5:153443/1‑149 (MQ=255)         tCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCcg                                                                                                                           >  1:214619/1‑149 (MQ=255)             cACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGaa                                                                                                                       <  4:211218/149‑1 (MQ=255)              aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAAc                                                                                                                      >  5:131954/1‑149 (MQ=255)                ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                    >  3:352457/1‑149 (MQ=255)                 cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACggg                                                                                                                   <  4:67950/149‑1 (MQ=255)                  acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACg                                                                                                                     <  3:472/146‑1 (MQ=255)                  acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACg                                                                                                                     >  4:472/1‑146 (MQ=255)                  acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                  <  5:277979/149‑1 (MQ=255)                                 tGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAtct                                                                                                   <  8:344124/149‑1 (MQ=255)                                   cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAt                                                                                                     >  6:121430/1‑145 (MQ=255)                                   cAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAt                                                                                                     <  5:121430/145‑1 (MQ=255)                                    aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTa                                                                                                >  8:266262/1‑149 (MQ=255)                                     gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                               >  1:242270/1‑149 (MQ=255)                                      aaGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCCGGCACGGGCCGGGGCGGGTGATCTCTAtt                                                                                              >  1:339877/1‑148 (MQ=255)                                               gTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCg                                                                                    <  4:352457/149‑1 (MQ=255)                                               gTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCg                                                                                    <  7:129496/149‑1 (MQ=255)                                                  aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGc                                                                                  <  5:227931/148‑1 (MQ=255)                                                            cGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑ggg                                                                      <  6:327071/149‑1 (MQ=255)                                                             ggAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGc                                                                     <  6:131954/149‑1 (MQ=255)                                                               aGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCAt                                                                   <  7:266262/149‑1 (MQ=255)                                                                      gAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCCAGCCCGGGAACGGGCCAGGCCGGCTGATAGCTAA‑GGCGGTGCCGGCCACATAGCGGGGCATGcccca                                                             >  7:165053/1‑147 (MQ=255)                                                                      gAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGCACGGGCCTGGCCTGCTGATCTCTAT‑TGCTGAGCCGGCCACATAGC‑GGGCATGCCCGCt                                                            >  1:10256/1‑149 (MQ=255)                                                                         gTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctggc                                                                                                             <  4:55728/99‑1 (MQ=255)                                                                         gTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctggc                                                                                                             >  3:55728/1‑99 (MQ=255)                                                                         gTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTcc                                                          >  7:366955/1‑148 (MQ=255)                                                                               cATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGt                                                   >  5:200237/1‑149 (MQ=255)                                                                                        caAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGc                                                                                      >  7:41740/1‑106 (MQ=255)                                                                                        caAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGc                                                                                      <  8:41740/106‑1 (MQ=255)                                                                                        caAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGtt                                          <  6:200237/149‑1 (MQ=255)                                                                                         gaGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGc                                                                 >  5:379669/2‑125 (MQ=255)                                                                                         gaGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGc                                                                 <  6:379669/124‑1 (MQ=255)                                                                                         ctatttttctgatTGCTACATAGGGGTGCCCTAAACTTGCCTAAGCCTTTGTGGGAGGGGGCATGCCGGCGAACGGGCCTGGCGTGCTTATCTCTTT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTg                                         <  2:126827/142‑1 (MQ=37)                                                                                           gCTGATCTGATTCCCAAATCCGGGTGCCCGAAACTTGCCCACGCCTATGTGGCAGGGGGCATGCCCGCGAACGGGCCTGGCCGGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGc                                       <  6:114413/149‑1 (MQ=37)                                                                                              gatctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCGGAGCCGGCCTCTTCGC‑GGGCATGGCCGCGCCCACAGGTTTCGGGGTTGGCTCg                                    >  7:277642/1‑149 (MQ=255)                                                                                                tctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCGAACGGGCCTGGCCTGCTGAAAAATATGGGATAAGCCGGCCTATTCCC‑GGGCATGCCCCCTCCCACAGGTTTCGTGGTTggtgatc                                   >  1:126827/1‑144 (MQ=255)                                                                                                    atTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                               <  2:158758/86‑1 (MQ=255)                                                                                                    atTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                               >  1:158758/1‑86 (MQ=255)                                                                                                                  ttGCCCTAAACTTGCCGAAGCATATGTGCGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTc                                                           <  5:91849/105‑1 (MQ=38)                                                                                                                  gTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACCGGCCTGGCCTGCTGATATCTAT‑TGCTGAGCCGGCCTCTTAGC‑GGGCATGCCCGCTCCCACAGGTTTAGTGGTTGGCTAGCAACGGCATTACAAtaacgc                >  5:147983/1‑144 (MQ=38)                                                                                                                       cGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAATCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCACATAGC‑GGGCATGCCCGCAACCACAGGTTTAGTGGTTGGCTCGCAAGGGCATTCCAAAACCGCCAta            >  2:46844/1‑147 (MQ=255)                                                                                                                        gAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGCACGGGCCTGGCCTACTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCt          >  3:245432/1‑149 (MQ=255)                                                                                                                         aaaCTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCGGATCTCTAT‑GGCTGAGCCGGCCTCATCGC‑GGGCATGCCCGCGACCCCAGGTTTCGGGGTTGGCTAGCAAGGGCATTACAATACCGCCATCCtt         >  6:289190/1‑149 (MQ=255)                                                                                                                          atcTTGCCTAAGCCTATGTTGTATCGGGAATGCCCGCTAACGGGCCTGGCCTGATGATCTCTAT‑GGCTGAGCCGGCATCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCt          <  6:153443/145‑1 (MQ=38)                                                                                                                             ttGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAg     >  5:163765/1‑149 (MQ=255)                                                                                                                                ccGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGc  <  2:242270/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                    CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAT‑GGCTGAGCCGGCCTCTTCGC‑GGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGC  >  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: ‑