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%	180.5 / NA	53	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 (22/31);  total (22/31)

AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCT‑CCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAA  >  NC_002947/499058‑499343                                                                                                                                                  |                                                                                                                                               aaGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                             <  6:406935/149‑1 (MQ=255) aaGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGc                                                                                                                                             <  7:316736/149‑1 (MQ=255)  aGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCa                                                                                                                                            >  8:385763/1‑149 (MQ=255)      cATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTcc                                                                                                                                        >  7:342902/1‑149 (MQ=255)       aTCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGccc                                                                                                                                       <  4:245063/149‑1 (MQ=255)            cACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGAAGCGGGCATGCCCGCG‑aa                                                                                                                                 >  3:58408/1‑149 (MQ=255)             aCCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AAc                                                                                                                                >  7:145537/1‑149 (MQ=255)               ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTTAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACgg                                                                                                                              <  8:112080/149‑1 (MQ=255)               ccACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACgg                                                                                                                              >  5:51120/1‑149 (MQ=255)                 acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCGCG‑AACGggc                                                                                                                            >  8:218043/1‑149 (MQ=255)                 acaAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGggc                                                                                                                            >  2:37271/1‑149 (MQ=255)                      gCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGggcctggc                                                                                                                       >  5:172361/1‑149 (MQ=255)                        aCGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGggcctggcct                                                                                                                     >  2:147746/1‑149 (MQ=255)                             tGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGa                                                                                                                >  4:51751/1‑149 (MQ=255)                               aTGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGAt                                                                                                               <  8:145537/148‑1 (MQ=255)                                    gAAGTTGAAAGTGACCTCGCTGGCGGTGCTGGGGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTAt                                                                                                         <  8:73458/149‑1 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTAt                                                                                                         <  6:51120/149‑1 (MQ=255)                                    gAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTAt                                                                                                         <  3:51751/149‑1 (MQ=255)                                      aGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATgg                                                                                                       <  4:7515/149‑1 (MQ=255)                                           aaaGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGa                                                                                                   <  1:37271/148‑1 (MQ=255)                                               tGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCgg                                                                                              >  1:257999/1‑149 (MQ=255)                                                 atcTCGGTGGCGGAGCTGGTGAAGTAAGCCATTGAGCACTAGCTTATTTTATTGCTAATTACGGGTGCACGAATGTTGTCGTAGCCTATGTGGTATCGTGCATGCGCGCG‑ATGGGGACTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                             <  4:58408/146‑1 (MQ=255)                                                 aaCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                             <  2:412996/148‑1 (MQ=255)                                                  aCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGggc                                                                                                                            >  3:120878/1‑116 (MQ=255)                                                  aCTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGggc                                                                                                                            <  4:120878/116‑1 (MQ=255)                                                      gCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTAAGGCTGAGGCGGCCTCTTc                                                                                       >  1:27656/1‑149 (MQ=255)                                                          gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                   <  4:313682/149‑1 (MQ=255)                                                          gCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                   <  2:257999/149‑1 (MQ=255)                                                          gCGGAGCTGGGGAACTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCgg                                                                                   <  5:139470/149‑1 (MQ=255)                                                             gAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTa                                                                                                          <  5:80268/123‑1 (MQ=255)                                                             gAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTa                                                                                                          >  6:80268/1‑123 (MQ=255)                                                               gCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATg                                                                              <  1:147746/149‑1 (MQ=255)                                                                  ggTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGCTCTCTATGGCTGAGCCGGCCTCTTAGCGGGCATGccc                                                                           >  3:324702/1‑149 (MQ=255)                                                                  ggTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGccc                                                                           >  2:316926/1‑149 (MQ=255)                                                                   gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                             <  1:265659/130‑1 (MQ=255)                                                                   gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGc                                                                                             >  2:265659/1‑130 (MQ=255)                                                                   gTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACCGGCCAGGCCGTCAGATCTCTATTGGTGAGCCGGCCTCATAGCGGGCAAGcccc                                                                          >  3:154261/1‑148 (MQ=255)                                                                            cccATCGAGCACACCCTCATCTCATTGCCCACTACGGGTCCCCGAAACTTGCCTCCCCCTTTGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGCCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCT‑CCCACAg                                                                <  4:324702/148‑1 (MQ=25)                                                                                        aaGCTGATCTGCTTCCTACATACGGGGGCCCCAAACTTCCCCACCCCTATGGGGCCGCGGGCATGCCCGCG‑AACGGGCCGGCCCTGCTGACCTCTATGGCTGCGCCGGCCTCTTCGCGGGCATGCCCGCT‑CCCACAGGTTTCGTGGTTg                                                    <  8:254503/149‑1 (MQ=25)                                                                                                   atTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCt                                                                                                     <  5:193051/90‑1 (MQ=255)                                                                                                   atTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCt                                                                                                     >  6:193051/1‑90 (MQ=255)                                                                                                    ttGCGACATTCGGGGGCCGTAAACTTGCCGATGCCTCTGTGGGAGGGGGCTTGCGCGCG‑AAGGGGCCTGGCGTGCTGTTGTCTATGGCTGAGCCGGCGTCTTCGGGGGCTTGCCCGCT‑CCCACAGGTTTCGTGGTTGGCTCGCAAggg                                         <  2:27656/148‑1 (MQ=255)                                                                                                      gCGACATACGGGTGCCCGAAACTTGCCGACGCCTATGGGGGAGCGGGCATGCCCGCG‑AACGGGCCGGGCCTGCTGATCTCAATGGCTGAGCCGGCCTCTTCGCGGGCATGccc                                                                           <  7:170145/113‑1 (MQ=39)                                                                                                        gACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATTCCCCCGCAACGGG‑CTGGCCAGCTGATCGCTATGGCTGCGCCGGCCGCTTAGCCGGCATGCCCGCT‑CCCACAGGTTTAGTGGTTTGGGAGCAAggggcat                                     >  4:358993/1‑144 (MQ=255)                                                                                                                ggTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATg                                                                              >  4:382549/1‑100 (MQ=255)                                                                                                                ggTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATg                                                                              <  3:382549/100‑1 (MQ=255)                                                                                                                      cGAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATATATATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCT‑CCCACAGGTTTGGTGGTTGGGTCGCAAGGGCaata                                    >  1:123032/1‑132 (MQ=38)                                                                                                                       gAAACTTGCCGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCTCCCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATcc                      <  1:316926/149‑1 (MQ=255)                                                                                                                               ccGAAGCCTATGTGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCT‑CCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGc             <  1:303298/149‑1 (MQ=255)                                                                                                                                  aaGCCTATGGGGGAGCGGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCT‑CCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGAt          <  6:172361/149‑1 (MQ=255)                                                                                                                                    gCCTATGGGGGAGCGGGCATGCCCGCG‑ACCGGGCCTGGCCTGCTGAGCTCTATGGCTGAGCCGGCCTCTGCGCGGGCATGCCCGCT‑CCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATcc        <  7:218043/149‑1 (MQ=39)                                                                                                                                          gtgGGTGCGGGCATGCCCGCG‑AACGGGCCTGGCctgc                                                                                                                   <  7:54194/37‑1 (MQ=255)                                                                                                                                           tgGGCGCGGGCAGGCCCGCT‑ACCGGGCCTGGCCTGCTGATCTCTATGGCTGCGCCGGCCTCTTCGCGGGCTTGCCCGCT‑CCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTacaa  <  7:385763/148‑1 (MQ=38)                                                                                                                                                  |                                                                                                                                               AAGACCATCAGCACCCACAAGGCACGCCTGATGCAGAAGTTGAAAGTGAACTCGCTGGCGGAGCTGGTGAAGTACGCCATGGAGCACAAGCTGATCTGATTGCGACATACGGGTGCCCGAAACTTGCCGAAGCCTATGTGGGAGCAGGCATGCCCGCG‑AACGGGCCTGGCCTGCTGATCTCTATGGCTGAGCCGGCCTCTTCGCGGGCATGCCCGCT‑CCCACAGGTTTCGTGGTTGGCTCGCAAGGGCATTCCAATCCCGCCATCCTTGTAGGGCGATCCCTACAA  >  NC_002947/499058‑499343

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: ‑