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%	156.2 / NA	46	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 (23/23);  total (23/23)

AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAA  >  NC_002947/499058‑499347                                                                                                                                                     |                                                                                                                                                  aaGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                                <  5:268549/149‑1 (MQ=255)   gACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAt                                                                                                                                              <  7:168499/149‑1 (MQ=255)         cAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgc                                                                                                                                        >  1:378726/1‑149 (MQ=255)           gCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgcg                                                                                                                                       >  5:295528/1‑148 (MQ=255)           gCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgcg                                                                                                                                       >  7:203297/1‑148 (MQ=255)            cACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑aa                                                                                                                                    <  3:254266/149‑1 (MQ=255)               ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                                >  5:224613/1‑135 (MQ=255)               ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                                <  6:224613/135‑1 (MQ=255)                    aGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGggcctg                                                                                                                            <  5:150470/149‑1 (MQ=255)                          gCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCctgc                                                                                                                      <  4:395904/149‑1 (MQ=255)                                   aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAt                                                                                                                                              <  2:257967/117‑1 (MQ=255)                                   aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAt                                                                                                                                              >  1:257967/1‑117 (MQ=255)                                   aGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTa                                                                                                             >  2:401381/1‑149 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCG‑AAAGGGCCTTGCCTGGTTATCTatat                                                                                                            >  2:146001/1‑149 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgc                                                                                                                                        <  3:123925/122‑1 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgc                                                                                                                                        >  4:123925/1‑122 (MQ=255)                                      aGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATgg                                                                                                          <  1:401381/149‑1 (MQ=255)                                           aaaGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAg                                                                                                     <  8:17807/149‑1 (MQ=255)                                            aaGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGc                                                                                                    >  1:268571/1‑149 (MQ=255)                                              gTGATCTCGCTGGCGGTGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCg                                                                                                  <  2:346431/149‑1 (MQ=255)                                              gTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGGTAGCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCG‑AACCGGCCTGGCCTGCAGATATATATTGCTGAg                                                                                                     >  1:346059/1‑149 (MQ=255)                                                 aaCTCGCTGGCGTAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                                <  1:428576/148‑1 (MQ=255)                                                   cTCGCTGGCGGAGCTGGTGAAGTACGCCATCGAGCACAACCTGATCAGATTACGACATACGGGTG‑‑‑CCCGAAACTTGCAGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGAACTCTAAGGCTGAACCGGCct                                                                                              >  8:312064/1‑148 (MQ=255)                                                      gCTGGCGTAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTc                                                                                          <  8:297156/149‑1 (MQ=255)                                                        tGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTcgc                                                                                        <  2:378726/149‑1 (MQ=255)                                                             gAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                      <  6:387921/146‑1 (MQ=255)                                                             gAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                      >  5:387921/1‑146 (MQ=255)                                                                  ggTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGGCTGCCCCCGCAACGGG‑CGGGGCGGCGGATATGTATTGGTGAGCCCGCCACATCGCGGGCaatccc                                                                              >  5:26622/1‑144 (MQ=255)                                                                   gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCa                                                                                   <  4:293831/143‑1 (MQ=255)                                                                   gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCa                                                                                   >  3:293831/1‑143 (MQ=255)                                                                        gTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGGATGACCGCG‑AACCGGCCAGGCCGGCTGCTATAGATTGCGGGTCCGGGCTCTTCGCGGGGATGccccgaccc                                                                        >  7:357363/1‑143 (MQ=255)                                                                          aCGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCca                                                                       >  8:122539/1‑148 (MQ=255)                                                                              cATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGt                                                                  >  1:113041/1‑149 (MQ=255)                                                                                       catggtgatctgatTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGATGCCTATGTGGGAGCGGGCATGCCCGCG‑AAGGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGtt                                                         <  2:113041/144‑1 (MQ=255)                                                                                             tatctgatTGCTAAATACGGGGG‑‑‑CCCCAAATTTGCGGACGCCTAGGTGGGAGCGGGAATGCCCGGG‑ACGGGGCCTGGCCGGCTGATCTCTATGGCTGCGCGGGCCTCTGCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTc                                                    <  8:203297/147‑1 (MQ=255)                                                                                                ctgatTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGc                                                  >  7:112777/1‑147 (MQ=255)                                                                                                       ctaCATAGGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTTTGTGGGTGCGGGCATGCCCGCG‑AAGGGGCGTGGCCTGCTTATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCAtt                                         <  2:346059/147‑1 (MQ=38)                                                                                                                 gTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGc                               >  5:215905/1‑149 (MQ=255)                                                                                                                        ccGAAAGTTCCCGAACCATAAGGGGGAGCGGGCAGCCCCGCT‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATc                           <  7:120244/149‑1 (MQ=37)                                                                                                                                   cGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCg                >  5:340807/1‑149 (MQ=255)                                                                                                                                           aTGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGGCTGCTGATCTCTATGGCTGAGCCGGCCTCTTAGCGGGCATGCCCGCTCCCACAGGTTTAGTGGTTGGCTCGCAAGGGCATTACAATCCCCCCATCCt                         >  6:205216/1‑132 (MQ=38)                                                                                                                                           aTGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCt                         <  5:205216/132‑1 (MQ=255)                                                                                                                                            tgtgGTAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCAACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTa         <  1:146001/147‑1 (MQ=255)                                                                                                                                              ggggCGCGGGCAGGCCCGCG‑ACCGGCCCTGGCCTGCTTATCTCTAGGGCTGCGCCGGCCGCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTa         <  3:302239/144‑1 (MQ=255)                                                                                                                                               gggAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTacaac     >  2:347039/1‑148 (MQ=255)                                                                                                                                                  aGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACaaa  >  4:145618/1‑148 (MQ=255)                                                                                                                                                     |                                                                                                                                                  AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTG‑‑‑CCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAA  >  NC_002947/499058‑499347

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: ‑