Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,849,792	(C)5→4	coding (345/1503 nt)	uhpB ←	sensory histidine kinase in two‑component regulatory sytem with UhpA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,849,788	0	C	.	100.0%	151.0 / NA	37	coding (349/1503 nt)	uhpB	sensory histidine kinase in two‑component regulatory sytem with UhpA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (16/21);  total (16/21)

CGAGATAGTGCCAGAACACCAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCGCCCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGATCATCAATAACGGAAAATGGGTTAAACCGACCGCCTGCG  >  NC_000913/3849650‑3849913                                                                                                                                           |                                                                                                                              cGAGATAGTGCCAGAACACCAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAAcgccgc                                                                                                                               <  2:79521/139‑1 (MQ=255) cGAGATAGTGCCAGAACACCAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAAcgccgc                                                                                                                               >  2:326153/1‑139 (MQ=255)   agaTAGTGCCAGAACACCAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCGccc                                                                                                                             >  2:971316/1‑139 (MQ=255)          gCCAGAACACCAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAAc                                                                                                                     >  1:449912/1‑139 (MQ=255)                 cacCAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAgg                                                                                                              <  1:326153/139‑1 (MQ=255)                   ccAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAACAAGGTg                                                                                                            >  1:439596/1‑139 (MQ=255)                    cAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAAcgccgc                                                                                                                               >  1:1071737/1‑120 (MQ=255)                    cAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAAcgccgc                                                                                                                               <  2:1071737/120‑1 (MQ=255)                    cAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTgc                                                                                                           >  1:21472/1‑139 (MQ=255)                            tCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCa                                                                                                   >  2:121054/1‑139 (MQ=255)                              ggggCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACg                                                                                                 <  1:971316/139‑1 (MQ=255)                                ggCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCt                                                                                               <  2:449912/139‑1 (MQ=255)                                ggCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCt                                                                                               >  1:526775/1‑139 (MQ=255)                                  ccAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGa                                                                                             >  2:371081/1‑139 (MQ=255)                                          aGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACgccgcc                                                                                                                              >  2:979804/1‑99 (MQ=255)                                          aGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACgccgcc                                                                                                                              <  1:979804/99‑1 (MQ=255)                                                          tCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCt                                                                     <  2:501250/139‑1 (MQ=255)                                                              cAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCCGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACg                                                                                                 >  2:300950/1‑107 (MQ=255)                                                              cAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACg                                                                                                 <  1:300950/107‑1 (MQ=255)                                                              cAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACgg                                                                 >  1:212092/1‑139 (MQ=255)                                                                 cAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCa                                                              <  1:480080/139‑1 (MQ=255)                                                                 cAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCa                                                              <  2:21472/139‑1 (MQ=255)                                                                   gcgcATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGt                                                            >  1:654649/1‑139 (MQ=255)                                                                      cATTCCACGACGCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTACCAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAAc                                                         <  1:560510/139‑1 (MQ=255)                                                                             cGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTa                                                  <  2:948835/139‑1 (MQ=255)                                                                             cGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTa                                                  <  2:671010/139‑1 (MQ=255)                                                                             cGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAACAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTa                                                  <  2:439596/139‑1 (MQ=255)                                                                                ctctTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACg                                                                                                 >  1:970727/1‑89 (MQ=255)                                                                                ctctTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACg                                                                                                 <  2:970727/89‑1 (MQ=255)                                                                                  ctTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTa                                             >  2:255704/1‑139 (MQ=255)                                                                                   tttGCCGTGCCAAAGTCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTAc                                            >  1:912627/1‑139 (MQ=255)                                                                                   tttGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTGACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTAc                                            >  1:694738/1‑139 (MQ=255)                                                                                          tGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCt                                                                                               >  2:78306/1‑81 (MQ=255)                                                                                          tGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCt                                                                                               <  1:78306/81‑1 (MQ=255)                                                                                          tGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGatcat                                     <  2:694738/139‑1 (MQ=255)                                                                                           gCCAAAGTCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGatcatc                                    <  2:912627/139‑1 (MQ=255)                                                                                                      ggCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGATCATCAATAACGGaaa                         <  1:156126/139‑1 (MQ=255)                                                                                                      ggCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGATCATCAATAACGGaaa                         <  1:567651/139‑1 (MQ=255)                                                                                                                gCAACAACGCCGCCGCCGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGATCATCAATAACGGAAAATGGGTTaaa               <  2:526775/139‑1 (MQ=255)                                                                                                                        gccgccgccGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTa                                                  >  2:1170440/1‑96 (MQ=255)                                                                                                                        gccgccgccGTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTa                                                  <  1:1170440/96‑1 (MQ=255)                                                                                                                             cgccgTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGATCATCAATAACGGAAAATGGGTTAAACCGACCGCCTGCg  <  2:886624/139‑1 (MQ=255)                                                                                                                               ccgTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCa                                                                          >  2:1312678/1‑65 (MQ=255)                                                                                                                               ccgTTAACGCCG‑CCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCa                                                                          <  1:1312678/65‑1 (MQ=255)                                                                                                                                           |                                                                                                                              CGAGATAGTGCCAGAACACCAGACATATCGGGGCCAGCGTCAGGCCGCCAGTTAAAGTCAGCAACAGCGCATTCCACGACTCTTTGCCGTGCCAAAGCCAGGGCAGCGACTGCAACAACGCCGCCGCCGTTAACGCCGCCCCCTGTAACAGCAAGGTGCGCCAGTCACGCTGATGGCGATAGCGCGAGATCAGCGCTACGGGCAGTAACGTCAGTAAACTACCGATCATCAATAACGGAAAATGGGTTAAACCGACCGCCTGCG  >  NC_000913/3849650‑3849913

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑