Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,521,852	T→C	D209G (GAT→GGT)	xapR ←	transcriptional activator of xapAB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,521,852	0	T	C	100.0%	213.7 / NA	60	D209G (GAT→GGT)	xapR	transcriptional activator of xapAB
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (30/30);  total (30/30)

TTGTGCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAATCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAACCGTAAG  >  NC_000913/2521719‑2521986                                                                                                                                      |                                                                                                                                       ttGTGCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcag                                                                                                                                   >  1:528299/1‑139 (MQ=255) ttGTGCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcag                                                                                                                                   <  1:369163/139‑1 (MQ=255)      cGTAGCTGTTCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagtcagt                                                                                                                              >  2:987930/1‑139 (MQ=255)      cGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagtcagt                                                                                                                              >  1:1048406/1‑139 (MQ=255)                cGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGggc                                                                                                                    <  2:1368240/139‑1 (MQ=255)                  cTATCAATGTGATACCAATGCCCATACTGACCATAGTGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGggcgg                                                                                                                  <  2:923770/139‑1 (MQ=255)                       aaTGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTg                                                                                                             <  1:746624/139‑1 (MQ=255)                        aTGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGt                                                                                                            >  2:1024091/1‑139 (MQ=255)                        aTGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGt                                                                                                            >  1:293849/1‑139 (MQ=255)                         tgtgATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTa                                                                                                           <  2:1051327/139‑1 (MQ=255)                                        cATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCa                                                                                            <  1:1024091/139‑1 (MQ=255)                                               aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt                                                                                                                                  <  2:829048/94‑1 (MQ=255)                                               aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt                                                                                                                                  >  1:829048/1‑94 (MQ=255)                                               aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCa                                                                                                                >  1:1254039/1‑112 (MQ=255)                                               aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCa                                                                                                                <  2:1254039/112‑1 (MQ=255)                                               aCCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGGCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAgcg                                                                                     >  1:140678/1‑139 (MQ=255)                                                 cATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCca                                                                                                                                    >  1:402552/1‑90 (MQ=255)                                                 cATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCca                                                                                                                                    <  2:402552/90‑1 (MQ=255)                                                 cATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCt                                                                                   >  2:393536/1‑139 (MQ=255)                                                    aGCGAGTACCGTTTGCGGTTCATTAACTTAGCGAATAACAACCGGTGAAAATCCCACCTGCTGCCAAACTCGCTGCAAAAAACCCCAATCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCAACTAGCTCTTcc                                                                                >  1:521377/1‑139 (MQ=255)                                                      cGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAg                                                                              >  2:15607/1‑139 (MQ=255)                                                         gTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCgg                                                                           >  1:820184/1‑139 (MQ=255)                                                          tACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCggg                                                                          >  2:837453/1‑139 (MQ=255)                                                           aCCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa                                                                         >  2:1122039/1‑139 (MQ=255)                                                           aCCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa                                                                         <  2:562501/139‑1 (MQ=255)                                                            ccGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGATAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCTGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGAc                                                                        <  2:984380/139‑1 (MQ=255)                                                               tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACg                                                                       <  1:1277546/137‑1 (MQ=255)                                                               tttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACg                                                                       >  2:1277546/1‑137 (MQ=255)                                                                ttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACggg                                                                                                                     <  1:740771/90‑1 (MQ=255)                                                                ttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACggg                                                                                                                     >  2:740771/1‑90 (MQ=255)                                                                ttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa                                                                         <  1:82029/134‑1 (MQ=255)                                                                ttGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa                                                                         >  2:82029/1‑134 (MQ=255)                                                                 tGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCt                                                                                   >  1:565688/1‑123 (MQ=255)                                                                 tGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCt                                                                                   <  2:565688/123‑1 (MQ=255)                                                                  gCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAAc                                                                                                                        >  2:1108339/1‑85 (MQ=255)                                                                  gCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAAc                                                                                                                        <  1:1108339/85‑1 (MQ=255)                                                                  gCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGa                                                                  <  2:293849/139‑1 (MQ=255)                                                                       tCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAatg                                                             >  1:871713/1‑139 (MQ=255)                                                                       tCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAatg                                                             <  2:528299/139‑1 (MQ=255)                                                                         aTTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAatgat                                                           >  1:1351183/1‑139 (MQ=255)                                                                          ttAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAatgatg                                                          <  2:871713/139‑1 (MQ=255)                                                                          ttAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAatgatg                                                          <  1:987930/139‑1 (MQ=255)                                                                          ttAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAatgatg                                                          <  2:242098/139‑1 (MQ=255)                                                                                   cgAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCgg                                                                           >  2:870218/1‑113 (MQ=255)                                                                                   cgAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAgatgat                                                 >  1:1118429/1‑139 (MQ=255)                                                                                   cgAATAACAACCGGTGAAAATCCCACCTGCTAGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCgg                                                                           <  1:870218/113‑1 (MQ=255)                                                                                    gAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGatgatg                                                <  2:1048406/139‑1 (MQ=255)                                                                                                gTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt                                                                                                                                  <  2:1182087/45‑1 (MQ=255)                                                                                                gTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCcagt                                                                                                                                  >  1:1182087/1‑45 (MQ=255)                                                                                                    aaaTCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGcc                                <  1:1122039/139‑1 (MQ=255)                                                                                                    aaaTCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGcc                                <  2:1118429/139‑1 (MQ=255)                                                                                                       tCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa                                                                         >  2:117919/1‑95 (MQ=255)                                                                                                       tCCCACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGa                                                                         <  1:117919/95‑1 (MQ=255)                                                                                                        cccACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTaa                                                                                                          >  2:1188135/1‑61 (MQ=255)                                                                                                        cccACCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTaa                                                                                                          <  1:1188135/61‑1 (MQ=255)                                                                                                           aCCTGCTGGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGaa                         >  1:933747/1‑139 (MQ=255)                                                                                                                ctgGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGc                     <  2:355829/138‑1 (MQ=255)                                                                                                                ctgGCAAACTCGCTGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGc                     >  1:355829/1‑138 (MQ=255)                                                                                                                             tGCAAAAAACCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAAcc       >  1:41246/1‑139 (MQ=255)                                                                                                                                  aaaaCCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAACCGTAAg  <  2:140678/139‑1 (MQ=255)                                                                                                                                      |                                                                                                                                       TTGTGCGTAGCTGTCCGCTATCAATGTGATACCAATGCCCATACTGACCATAGCGAGTACCGTTTGCGGTTCATTAACTTCGCGAATAACAACCGGTGAAAATCCCACCTGCTGGCAAACTCGCTGCAAAAAATCCCAGTCAGTGTAAACGGGCGGCATTGTAACAAAATACTCGTCACGTAGCGCTTCCAGCGGGACGGTGGAAAATGATGAGAGATGATGCTCTTCAGGCATCGCCACCAGAAACGCCGATTCATGCAACCGTAAG  >  NC_000913/2521719‑2521986

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑