Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	499,203	A→G	100%	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%	131.7 / NA	39	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 (16/23);  total (16/23)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTAC  >  NC_002947/499060‑499341                                                                                                                                                  |                                                                                                                                            gACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAt                                                                                                                                        >  5:369005/1‑149 (MQ=255) gACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCAt                                                                                                                                        <  7:64882/149‑1 (MQ=255)        aGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCcgc                                                                                                                                  <  1:121421/148‑1 (MQ=255)           aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAAc                                                                                                                              <  3:341165/149‑1 (MQ=255)            cccAAATGGGACTCCTGATGCAGAAGTTGAATGTGAAG‑TCGCTGGCGGAGCTGGTGAAGTTCGCCATGGAGCACATGCTGATCTGTTTTCGAC‑ATTCGGGTGCCGGAAACTTGCCGAAGCCTATGTGGGTGCGGGCATGCCCGCGAACg                                                                                                                             <  6:294699/149‑1 (MQ=255)             ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACgg                                                                                                                            >  4:96425/1‑149 (MQ=255)              cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACggg                                                                                                                           <  2:255929/149‑1 (MQ=255)              cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACggg                                                                                                                           <  5:267757/149‑1 (MQ=255)              cacaAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACggg                                                                                                                           >  3:203867/1‑149 (MQ=255)               acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                          <  4:91291/149‑1 (MQ=255)               acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                          >  6:170372/1‑149 (MQ=255)               acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggc                                                                                                                          >  2:82355/1‑149 (MQ=255)                 aaGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCTGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcct                                                                                                                        <  5:277305/149‑1 (MQ=255)                 aaGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcct                                                                                                                        <  4:203867/149‑1 (MQ=255)                        gCCTGATGCAGAAGTTGAAAGTGAACGTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGgcctggcctg                                                                                                                  >  1:4008/1‑149 (MQ=255)                        gCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCctgc                                                                                                                 >  3:337960/1‑149 (MQ=255)                                cAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCCTGCCCCCGCACGGGCCTGGCCTGCTGAtctc                                                                                                          >  3:84604/1‑148 (MQ=255)                                 aGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCggg                                                                                                                                           <  6:100950/114‑1 (MQ=255)                                 aGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCggg                                                                                                                                           >  5:100950/1‑114 (MQ=255)                                  gAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTAt                                                                                                       <  5:170372/149‑1 (MQ=255)                                   aaGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATg                                                                                                      <  4:364968/149‑1 (MQ=255)                                    aGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATgg                                                                                                     <  1:82355/149‑1 (MQ=255)                                    aGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATg                                                                                                      <  4:70242/148‑1 (MQ=255)                                          aaGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGc                                                                                               >  5:338245/1‑149 (MQ=255)                                               gactcgacTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGTGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                           <  6:17262/142‑1 (MQ=255)                                                       tGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACGATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCCCGAACGGGCCTGGCATGCTGATAAATATGGGTGAACCCGCctcatag                                                                                    >  1:282841/1‑145 (MQ=255)                                                            gAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCGGAGCCGGCCTCTTCG‑CGGGCa                                                                             <  4:337960/149‑1 (MQ=255)                                                             aGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCAt                                                                            >  8:253092/1‑149 (MQ=255)                                                                  gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCg                                                                       <  6:338245/149‑1 (MQ=255)                                                                      aGTCCGCCTTGTACCACACGCTTATCTTATGGCCAC‑ATCCGGGGGCCCTAAACTTCCCCAAGCTTTTGTGGTCGCGGGCATGCCCGCTAACGGGCCTGGCCTGCTTATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGAATGCCCGCTc                                                                    <  2:4008/148‑1 (MQ=255)                                                                        tACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCGCACCGGGCTGGCCGGGGGATCTGTATTGCTGGGCCGGGCGCTTAGCCGGCCATGccgcgcccc                                                                  >  3:348226/1‑142 (MQ=255)                                                                                  aGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCTGGAAAGGGCCTGGGCAGCTTATGTCTATTGCTGGGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCCCAGGTTTAGt                                                       >  5:273274/1‑149 (MQ=255)                                                                                              tctgatTGCTAC‑ATACGGGTGCCCTAAACTTGCCGAAGCCTTTGGGGGCGCGGGCATGCCCGCGAAGGGGCCGGGCCTGCTGATCTCTATGGCTGCGCGGGCCTCTGCG‑CGGGAATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGc                                            <  4:84604/148‑1 (MQ=255)                                                                                                   ttGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAggg                                       <  3:96425/148‑1 (MQ=255)                                                                                                            tACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctggcc                                                                                                                    <  4:114724/64‑1 (MQ=255)                                                                                                            tACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGggcctggcc                                                                                                                    >  3:114724/1‑64 (MQ=255)                                                                                                               gtgTGCCCTAAACTTGCCCATCCCTTGGTGGCTGGGGGCTTCCCGGCTAAGGGGCGTGGCGTGCTCTTCTTTTTGGCTCTGCGGGCCTCTCCG‑CGGGAATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATccc                           <  4:348226/147‑1 (MQ=255)                                                                                                                 gTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGc                         >  7:160804/1‑149 (MQ=255)                                                                                                                 gTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGc                         <  8:160804/149‑1 (MQ=255)                                                                                                                                cGAAGCCTATGTGGGAGCGGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCACAGGGTTCGTGGTTGGCTCGCAAGGGCATTCCAATGCCGCCATCCTTGTAggggg          >  7:341366/1‑147 (MQ=255)                                                                                                                                         tgtgGGAGGGGGCATGCCGGCTAACGGGCCTGGCCTGCTTATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTac  <  2:282841/148‑1 (MQ=39)                                                                                                                                                  |                                                                                                                                            GACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAAC‑TCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGAC‑ATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCGAACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCG‑CGGGCATGCCCGCTCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTAC  >  NC_002947/499060‑499341

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: ‑