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%	113.6 / NA	34	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 (15/19);  total (15/19)

CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTAC  >  NC_002947/499057‑499341                                                                                                                                                      |                                                                                                                                           cAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCggg                                                                                                                                          <  6:153031/149‑1 (MQ=255)    gACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCAt                                                                                                                                       <  5:141250/149‑1 (MQ=255)        aTCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGccc                                                                                                                                   <  2:301092/149‑1 (MQ=255)         tCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACTCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGACCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCcg                                                                                                                                  <  5:3157/149‑1 (MQ=255)                 cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                           <  2:29452/148‑1 (MQ=255)                 cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                           >  1:29452/1‑148 (MQ=255)                  acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                         >  1:324979/1‑149 (MQ=255)                  acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                         <  5:186579/149‑1 (MQ=255)                       gCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGggcctggc                                                                                                                    <  5:146168/149‑1 (MQ=255)                           gCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgc                                                                                                                <  5:390580/149‑1 (MQ=255)                            ccTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                           >  6:166566/1‑137 (MQ=255)                             cTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgctg                                                                                                              <  3:224582/149‑1 (MQ=255)                                     gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTGGTGTGTGGGAGCGGGGATTCCCCCGAAACggcctggccgggggt                                                                                                             >  1:328457/1‑139 (MQ=255)                                         ttGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAGATCTATGGCt                                                                                                  >  8:356495/1‑149 (MQ=255)                                           gAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCt                                                                                                  >  7:143761/1‑147 (MQ=255)                                             aaGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGc                                                                                              <  4:133690/149‑1 (MQ=255)                                                  aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                          <  8:143761/148‑1 (MQ=255)                                                                    gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGGTGATCTCTATTGCTGAGCCGGCCTCATCGCGGGCAAGcccc                                                                       >  5:138881/1‑148 (MQ=255)                                                                          tACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATTCCCGCGAACGGGCCTGGCCTGCTGATATCTATTGCTGAGCCGGCCTCTTAGCGGGCATGCCCGCGCCca                                                                 >  5:157558/1‑149 (MQ=255)                                                                               cATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGTCTCTTCGCGGGCATGCCCGCTCCCACAGGt                                                            >  1:95475/1‑149 (MQ=255)                                                                                aTGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCCAACCCGCCAACCGGCCAGGCGAGCATGTAGCTATTGGAGAGCCGGGCTCATAGCGGGCATGCCCCCACCCCCAGCtt                                                           >  4:151766/1‑149 (MQ=255)                                                                                   gAGCACAAGCTGTTTTGTTTGCTACATACGGGTGCCCGAAACTTGCCGACCCC‑‑‑TTTGTGGGCGCGGGCTTGCCCGCTAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGGGGGCATGCCCGCTCCCACAGGTTTc                                                         <  2:324979/148‑1 (MQ=37)                                                                                      cacaAGCTGATCTTATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGGGGGCATGCCCGCGAACGGGCCTGGCCTGCTTATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTg                                                      <  6:199717/148‑1 (MQ=255)                                                                                       acaAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGt                                                       >  8:191036/1‑146 (MQ=255)                                                                                       acaAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGt                                                       <  7:191036/146‑1 (MQ=255)                                                                                         attgttttcttatTGCTAAATAGGGGTGCCCTAAACTTGCCTACGCA‑‑‑TATGTGGGAGGGGGCTTGCCGGCTATGGGGCCGGGCCTGCTTATCTTTTTGGCTGCGCCGGCCTTTTCGCGGGCTTGCCCGCTCCCACAGGTTTCGTGGTTg                                                  <  6:157558/142‑1 (MQ=255)                                                                                                  tgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCAAGCCCCCGAACGGGCCTGGCCGGGTGATCTATATGGCTGAGGCGGCCAATAACCGGGCATTCCCGCTCCCCCACGTTTAGTGGTTGGCTCGCa                                           >  8:171891/1‑147 (MQ=255)                                                                                                        ccaCATACGGGTGCCCTAAACTTGCCGAAGCC‑‑‑TATGGGGGAGCGGCCATGCCCGCTAACGGGCCTGGCCTGCTGATCTCTATGGCTGCGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCAtt                                   <  7:356495/147‑1 (MQ=39)                                                                                                        cGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATGCCCGCGCACCGGCCGGGGCTGGGGGTAGGTATTGGTGAGCCGGGCGGTTAGCGGGCCTTGCCGCTGCCCCAGGTGTGGTGGTTTGCTGGCCAggggctt                                   >  2:6821/1‑145 (MQ=255)                                                                                                         gACATACGGGGGCCCCAAACTTGCCCAACCA‑‑‑TATGTGGGAGCGGGCATGCCCGCTAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTc                                  <  2:328457/149‑1 (MQ=38)                                                                                                                  gggCCCGAAACTTGCGGACGCC‑‑‑TATGGGGGAGCGGGCAGGCCCGCGAACGGGCCTGGCGTGCTTATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCTTGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAggg                                       <  2:256076/133‑1 (MQ=38)                                                                                                                  gTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATTCCCGCGAACGGGCCGGGCCGGGTGCTGGCGATTGCTGAGCCGGCCACATACCGGGCAAGCCCGCTCCCCCAGGTTTCGTGGGTTGCGCGCCAGGGGATTGCCATCCCGc                         >  2:81437/1‑149 (MQ=255)                                                                                                                             ttGCCGAAGCC‑‑‑TATGTGGGAGCGGGCATTCCCGCGAACGGGCCTGGCCTGCTGATCTCTATTGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCCATACCCCCATCCTTGTAg              >  6:172445/1‑149 (MQ=39)                                                                                                                                            ttgtgGGTGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTac  <  7:171891/148‑1 (MQ=255)                                                                                                                                             ggggggTGCGGGCTTGCCCGCTAAGGGGCGTGGCCTGCTGAACTATATGGCTGTGCCGGCCTCTGCGCGGGAATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTac  <  3:151766/145‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                           CAAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCC‑‑‑TATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTAC  >  NC_002947/499057‑499341

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑