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%	155.5 / 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 (17/29);  total (17/29)

AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACA  >  NC_002947/499058‑499345                                                                                                                                                   |                                                                                                                                               aaGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                             <  2:431561/149‑1 (MQ=255)  aGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCggggg                                                                                                                                            >  5:311242/1‑147 (MQ=255)     ccATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGc                                                                                                                                         >  5:336979/1‑149 (MQ=255)      cATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGcc                                                                                                                                        >  6:260114/1‑149 (MQ=255)        tCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcg                                                                                                                                      <  4:322652/149‑1 (MQ=255)        tCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcg                                                                                                                                      >  5:425595/1‑149 (MQ=255)               ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCAGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                               >  7:346915/1‑149 (MQ=255)                 acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAATCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                             <  6:368188/149‑1 (MQ=255)                 acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                             >  3:185478/1‑149 (MQ=255)                   aaGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAAGAggccg                                                                                                                           <  6:336979/149‑2 (MQ=255)                     ggCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCAGATTGCGACAAACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGCCATGCCCGCGAACGggcctgg                                                                                                                         >  1:389777/1‑149 (MQ=255)                         cGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGgcctggcctg                                                                                                                     <  1:271065/149‑1 (MQ=255)                          gacTGATGAAGAAGTTGATAGTGATCTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAATCTGATCTGATTGCGACATACGGGTGCGCGTATCTTGCCGAATCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgc                                                                                                                    <  2:389777/147‑1 (MQ=255)                          gCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgc                                                                                                                    <  6:362056/149‑1 (MQ=255)                           ccTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgct                                                                                                                   <  6:249624/149‑1 (MQ=255)                               aTGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAt                                                                                                                <  6:241210/148‑1 (MQ=255)                                tGCAGAAGTTGATAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAtct                                                                                                              <  1:210498/149‑1 (MQ=255)                                 gCAGAAGTTGAAAGTGAACTCGCTGGCGGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCCAACGGGCCTGGCCTGCTGaac                                                                                                               >  1:20116/1‑146 (MQ=255)                                 gCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAtctc                                                                                                             >  4:212992/1‑149 (MQ=255)                                   aGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTa                                                                                                           >  4:98108/1‑149 (MQ=255)                                   aGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTa                                                                                                           <  2:54681/149‑1 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                                          <  4:185478/149‑1 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                                          <  3:98108/149‑1 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                                          <  7:11218/149‑1 (MQ=255)                                           aaaGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGa                                                                                                    <  6:425595/148‑1 (MQ=255)                                              gTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCg                                                                                                <  5:260114/149‑1 (MQ=255)                                                         ggC‑GGAGCTGGGGAAGTACGCCATGGACCACAAGCGGATCTGCTTGCGACATACGGGTGCCCGACACTTGCCGCAGCCTCTGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTcgcg                                                                                     <  2:337378/149‑1 (MQ=255)                                                         ggC‑GGAGCGGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGGGCCCTAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATTGCTGAGCCGGCCTCTTcgcg                                                                                     <  6:420124/149‑1 (MQ=255)                                                          gc‑ggcgCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTAGGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCGGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                    <  5:86259/149‑1 (MQ=255)                                                          gC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCCTGCCCGCGGACGGGCCGGGCCGGGGGATATGTTTGGGTGGGCCGGCCTCATAGCgg                                                                                    >  3:59756/1‑149 (MQ=255)                                                          gC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                    <  5:49436/149‑1 (MQ=255)                                                          gC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                    <  7:33443/149‑1 (MQ=255)                                                                     tGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGc                                                                          <  3:212992/149‑1 (MQ=255)                                                                         gTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAAACGGCCGGGCCGGCGGATAGCGATGGCTGTGCCGGCCTCTTCGCGGGCAAGCCCGCTgcc                                                                      >  6:421464/1‑149 (MQ=255)                                                                                     ccacaCGCGGACCTGATCCCCACATACGGGCCCCCCAACCTCGCCCACGCCTAGGTGGCCGCGGCCAGGCCCGCGAACGGGCCTGGCCTGCTCACCCCTCTGCCTGACCCGGCCGCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTg                                                          <  2:43122/148‑1 (MQ=255)                                                                                       acaAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGCACGGGGCTGGCCGGGTGATATCTATGGCTGAGCCGGCCTCATCGCGGGGATGCCCGCTCCCACAGGTTTggtggt                                                        >  6:1626/1‑149 (MQ=255)                                                                                             tgatctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCGAACGGGCCTGGCCTGCTGATATCTATGGCTGAGCCGGCCTCTTAGCGGGCATGCCCGCTCCCAAACGTTTAGTGGTTTGc                                                    >  1:266511/1‑147 (MQ=255)                                                                                                   gatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAATCCCGCGAACGGGCCAGGGCGGGGGGTCTCTATGGGTGCGGCGGGCACTTCGCGGGCCTGCCCGCGCCCACACGGTTAGTGGGTGGCTCGCAAgg                                            >  8:224244/1‑149 (MQ=255)                                                                                                    attcccaCATCCGGGTGCCCGAAACTTGCCGACGCCTATGTGGGAGCGGCCAGGCCCGCCAACGGGCCTGGCCTGCTTATCTCTATGGCTCAGCCGCCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAgg                                            <  8:144859/142‑1 (MQ=37)                                                                                                      tGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgctg                                                                                                                  <  6:256238/76‑1 (MQ=255)                                                                                                      tGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgctg                                                                                                                  >  5:256238/1‑76 (MQ=255)                                                                                                               cGGGTGCCCTAAACTTCCCGACGCCTAGGGGGCGGCGGGCTTGCCCGCTAAGGGGCGGGGCGTGGTGTTTTCTATGGTTGAGCGGGCCTCTTCGCGGGAATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATc                                 <  2:20116/148‑1 (MQ=255)                                                                                                                      ccGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGCTCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATc                         >  8:427922/1‑149 (MQ=255)                                                                                                                                     gccttggtgGGTGCGGTCAGGCCCGCGACCGGGCCTGGCCTGCTGATCTCTTTGGCTGAGCCGGCCTCTTCGGGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATcc          <  1:254472/143‑1 (MQ=38)                                                                                                                                     gCCTATGTGGGAGCGGGCATGCCCGGGAACGGGCCTGGCCTGCTGATCTCTATTGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATcc          <  8:346915/149‑1 (MQ=255)                                                                                                                                       atttgtgGTAGCGGGCATGCAGGTGAAGGGGCCTGTCCTGCTGATCTTTATGGATGTGGGTGCCTTTTCGCGGGATTGCCCGCTCCCACAGGTTTCGTGGTTGGCTGGCAAGTGCATTCCAATCCCGCCATCCTTGTAGGGCGATGCCt        <  6:350436/146‑1 (MQ=255)                                                                                                                                              ggAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTAGCGGGCATGCCCGCACCCACAGGTTTAGTGGTTTGCTCGCAAGGGCATTCCAAAACCGCCAACCATTTAGGGCGATACCGacaaca  >  6:175939/1‑148 (MQ=255)                                                                                                                                                   |                                                                                                                                               AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGC‑GGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACA  >  NC_002947/499058‑499345

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: ‑