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%	117.6 / NA	36	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 (17/19);  total (17/19)

CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCG  >  NC_002947/499057‑499333                                                                                                                                                    |                                                                                                                                    cAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCggg                                                                                                                                   <  1:339494/149‑1 (MQ=255)   aGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAAATTGCCGAAGCCTATGTGGGAGCGGGCa                                                                                                                                 >  5:16319/1‑149 (MQ=255)       cATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGcc                                                                                                                             >  5:170409/1‑149 (MQ=255)        aTCAGCACCCACAAGGCACGCCTGATGCAGTAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGccc                                                                                                                            >  5:137803/1‑149 (MQ=255)        aTCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGccc                                                                                                                            >  3:338958/1‑149 (MQ=255)            gCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgc                                                                                                                          >  1:275210/1‑148 (MQ=255)            gCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgcg                                                                                                                         >  2:150375/1‑148 (MQ=255)              aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAAc                                                                                                                      <  6:170409/149‑1 (MQ=255)               cccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACg                                                                                                                     <  3:19898/149‑1 (MQ=255)                ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                    >  5:269037/1‑149 (MQ=255)                ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                    <  2:314018/149‑1 (MQ=255)                 cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACggg                                                                                                                   >  1:209043/1‑149 (MQ=255)                    aaGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcct                                                                                                                >  4:304305/1‑149 (MQ=255)                     aGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctg                                                                                                               <  8:62386/149‑1 (MQ=255)                           gCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCct‑gc                                                                                                        <  1:248221/149‑1 (MQ=255)                            ccTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCct‑gct                                                                                                       <  1:150375/149‑1 (MQ=255)                                  gCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGAtat                                                                                                  <  6:16319/148‑3 (MQ=255)                                   cAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGAtctc                                                                                                 >  6:199521/1‑148 (MQ=255)                                   cAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATctct                                                                                                <  2:209043/149‑1 (MQ=255)                                       aGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATgg                                                                                            <  3:203145/149‑1 (MQ=255)                                       aGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATgg                                                                                            <  2:275210/149‑1 (MQ=255)                                           gAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCAGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGAGGGAGCGGGCATGCCCGAGAACGGGCCTGGCCT‑GCTGATCTCTATggaaga                                                                                        >  7:286624/1‑145 (MQ=255)                                             aaGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctg                                                                                                               <  8:17224/125‑1 (MQ=255)                                             aaGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctg                                                                                                               >  7:17224/1‑125 (MQ=255)                                                 gAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGgcctggcct‑g                                                                                                         <  3:233655/126‑1 (MQ=255)                                                 gAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGgcctggcct‑g                                                                                                         >  4:233655/1‑126 (MQ=255)                                                            gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTCGCTGATCTCTATGGCTGAGCCGGCCTCTTcgcg                                                                         <  1:238679/149‑1 (MQ=255)                                                            gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATGGCTGAGCCGGCCTCTTcgc                                                                          <  2:76132/147‑1 (MQ=255)                                                            gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                        <  5:199521/149‑1 (MQ=255)                                                                   tGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGcc                                                                 >  5:82243/1‑149 (MQ=255)                                                                                cATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAAGCCCGGGCACGGGCCTGGCCA‑GCTGAGCTCTATGGGTGGGCCGGCCACTTAGCCGGCATTGCCGCTCCCACAGGt                                                    >  3:78378/1‑149 (MQ=255)                                                                                         caAGCGGATCGGATTGCGACATACGGGGGCCCGAACCTTGCCGAAGCCTATGTGGCAGCGGCCATGCCCGCGAACGGGCCTGGCCT‑GCTTATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGtt                                           <  3:304305/149‑1 (MQ=38)                                                                                                  ctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGGACCGGCCTGGCCG‑GGTTGTAGCTAATGCTGAGCCGGCCGATTAGCGGGCAAGCCCGCACCCACAGGTTTAGTGGtttggtccc                                    >  4:124964/1‑140 (MQ=255)                                                                                                                     gCCCGAAAGTTCCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGTGCCTGGCCT‑GCTGATGTCTATGGGTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCa               <  6:269037/149‑1 (MQ=39)                                                                                                                                 ccGAAGCCTATGTGGGTGGGTGGCTGCCGGGGTAGGGGCCTGGCGT‑GCTGATGTGTTTGGCTGTGCCGGCCTCTTCGCGGGCTTGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGc   <  8:286624/149‑1 (MQ=25)                                                                                                                                  cGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGc   >  7:172720/1‑148 (MQ=255)                                                                                                                                  cGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCg  <  8:172720/149‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                    CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCT‑GGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCT‑GCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCG  >  NC_002947/499057‑499333

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: ‑