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%	154.9 / NA	47	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 (24/23);  total (24/23)

AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAAT  >  NC_002947/499058‑499348                                                                                                                                                   |                                                                                                                                                    aaGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                                  <  4:202190/149‑1 (MQ=255)     ccATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGc                                                                                                                                              >  1:238800/1‑149 (MQ=255)      cATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGCGCGGGCATGcc                                                                                                                                             >  2:219679/1‑149 (MQ=255)       aTCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGccc                                                                                                                                            <  1:55745/149‑1 (MQ=255)            cACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGaa                                                                                                                                       >  4:173421/1‑149 (MQ=255)             aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAAc                                                                                                                                      <  2:238800/149‑1 (MQ=255)              cccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGCGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGACCg                                                                                                                                     >  6:324861/1‑149 (MQ=255)                 acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                                  >  7:221529/1‑149 (MQ=255)                 acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                                  >  8:163638/1‑149 (MQ=255)                     ggCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctgg                                                                                                                              <  4:75360/149‑1 (MQ=255)                      gCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctggc                                                                                                                             <  6:337572/149‑1 (MQ=255)                           ccTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgct                                                                                                                        <  3:173421/149‑1 (MQ=255)                             tGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCTTGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCGCACGGGCCTGGCCTGCTGa                                                                                                                      >  3:62853/1‑149 (MQ=255)                             tGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCCCGCACCGGCCAGGCcagcggg                                                                                                                      >  3:76795/1‑146 (MQ=255)                                tGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCAGCAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAtc                                                                                                                    >  1:100014/1‑149 (MQ=255)                                 gCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGAtctc                                                                                                                  >  7:32955/1‑149 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGCACGGGCCTGGGCTGCTGATCTGTAt                                                                                                               >  5:110121/1‑149 (MQ=255)                                      aGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATg                                                                                                              <  8:32955/148‑1 (MQ=255)                                       gTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGc                                                                                                            <  4:347312/149‑1 (MQ=255)                                       gTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGc                                                                                                            >  3:347312/1‑149 (MQ=255)                                          gAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCt                                                                                                           >  6:117979/1‑147 (MQ=255)                                                 aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑Gcc                                                                                                >  6:347671/1‑149 (MQ=255)                                                 aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑Gc                                                                                                 <  8:221529/148‑1 (MQ=255)                                                 aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑Gc                                                                                                 <  2:267193/148‑1 (MQ=255)                                                      gCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCCCGCAAGGGCCTGGCCGGCAGATCTAAAATGCTGATCCG‑‑GCctct                                                                                             >  1:318152/1‑147 (MQ=255)                                                          gCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCgg                                                                                       <  3:234779/149‑1 (MQ=255)                                                          gCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCgg                                                                                       >  4:297613/1‑149 (MQ=255)                                                          gCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCgg                                                                                       <  7:163638/149‑1 (MQ=255)                                                                     gAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCAt                                                                                   <  1:196908/142‑1 (MQ=255)                                                                     gAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCAt                                                                                   >  2:196908/1‑142 (MQ=255)                                                                      aaGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCt                                                                            <  5:117979/148‑1 (MQ=255)                                                                         tACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTcg                                                                                          <  5:251884/131‑1 (MQ=255)                                                                         tACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTcg                                                                                          >  6:251884/1‑131 (MQ=255)                                                                                tGGAGCA‑CAAGCTGATCTTATTGGTACTTACGGGTGCCCCAAACTTGCCGATGCCTTTGTGGGAGCGGGCATGCCCGGGAACGGGCCTGGCCTGCTTATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGttt                                                                 <  6:259447/149‑1 (MQ=37)                                                                                         aaGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCACGCGAACGGGCCTGGCCTGCTGATCTATATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTg                                                         >  1:36162/1‑149 (MQ=255)                                                                                            ctgatctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGGGGGGTAGCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTgg                                                        >  1:303519/1‑149 (MQ=255)                                                                                              gatctgatTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCg                                                    >  2:33814/1‑149 (MQ=255)                                                                                                tcttatTGGTACATCCGGGTGCCCTAACCTTGCCCAAGCATTTGTGGTCGGGGGCATGCCCGCGAAGGGGCCTGCCCTGCTTATCTCTATGGCTCAGCCG‑‑GCCTCTTCGGGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGc                                                   <  4:62853/148‑1 (MQ=255)                                                                                                    atTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAgg                                               <  1:33814/148‑1 (MQ=255)                                                                                                         gACATACGGGTGCCCGACACTTGCGGCAGCCGTTGTGGGCGCGGGCTGGCCCGCGAACGGGCGTGGCCGGCGGAGCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGGTTCGTGGTTGGCTCGCAAGGGCATTc                                         <  5:324861/149‑1 (MQ=25)                                                                                                           cATCCGGGGGCCCGAAAGTTGCCGCAGCCTCTGGGGCTGCGGGCAGGCCCGCTAACGGGCCTGGCGTGCTTATCTGTATGGCTGAGCCG‑‑GCGTCTGCGGGGCCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTc                                         <  6:110121/147‑1 (MQ=255)                                                                                                                 ggggCCCGAAACTTGCCGAAGCCTATGTGGGTGCGGGCATGCCCGTGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGGGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCg                                 <  2:100014/146‑1 (MQ=39)                                                                                                                        gAACCTTGCCGAAGCCTATGTGGGCGGGGGCATGCCCGCGAACGGGCCGGGCCTGCTGAGCGCTATGGCTTAGCCG‑‑GCCTCTCCGCGGGCTTGCCCGCTCCCACAGGTTTCGTGGtt                                                          <  6:295262/117‑1 (MQ=37)                                                                                                                        gAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGGGGGTCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGtt                                                          >  5:295262/1‑117 (MQ=38)                                                                                                                               gccctcgCCTAGGGGGGCGCGGGCAGGCCCGCTACCGGGCGTGGCCTGCTCAGCTCTATGGCGCCGCCG‑‑GCCGATGCGCGGGCATCCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAg                     <  3:224084/141‑1 (MQ=255)                                                                                                                                       cTATGGGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATccc            >  7:330318/1‑148 (MQ=255)                                                                                                                                                aGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAAt  >  8:203272/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                    AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCA‑CAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCG‑‑GCCTCTTCGCGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAACAAAT  >  NC_002947/499058‑499348

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: ‑