Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,189,703	A→G	V25A (GTA→GCA)	phoQ ←	sensory histidine kinase in two‑component regulatory system with PhoP

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,189,703	0	A	G	100.0%	72.8 / NA	22	V25A (GTA→GCA)	phoQ	sensory histidine kinase in two‑component regulatory system with PhoP
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (10/12);  total (10/12)

GGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTACTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTC  >  NC_000913/1189593‑1189826                                                                                                               |                                                                                                                            gggTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACg                                                                                                 <  1:228775/139‑1 (MQ=255) gggTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACg                                                                                                 <  1:817555/139‑1 (MQ=255)            aGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCg                                                                                      >  1:27063/1‑139 (MQ=255)             gATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTa                                                                                               >  1:359578/1‑129 (MQ=255)             gATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTa                                                                                               <  2:359578/129‑1 (MQ=255)                   tctcGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCgg                                                                               >  2:699094/1‑139 (MQ=255)                      cGCCTCGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGcc                                                                                                            <  1:149227/107‑1 (MQ=255)                      cGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGAGAATGCACCAGTGCTACCGCTGCCGTTGcc                                                                                                            >  2:149227/1‑107 (MQ=255)                        ccACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGtt                                                                                                               <  1:326102/102‑1 (MQ=255)                        ccACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGtt                                                                                                               >  2:326102/1‑102 (MQ=255)                                    cGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTa                                                              <  2:709146/139‑1 (MQ=255)                                     gAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGa                                                                     <  1:436658/131‑1 (MQ=255)                                     gAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGa                                                                     >  2:436658/1‑131 (MQ=255)                                                           gACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGa                                       <  2:27063/139‑1 (MQ=255)                                                                            gcgcGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCgag                                                                                    >  2:198420/1‑77 (MQ=255)                                                                            gcgcGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCgag                                                                                    <  1:198420/77‑1 (MQ=255)                                                                                aaCCATACCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGaa                  <  2:211957/138‑1 (MQ=255)                                                                                       ccGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGa                                       >  2:427747/1‑111 (MQ=255)                                                                                       ccGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGa                                       <  1:427747/111‑1 (MQ=255)                                                                                        cGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTa          <  1:699094/139‑1 (MQ=255)                                                                                                aGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCActtc  >  2:14185/1‑139 (MQ=255)                                                                                                aGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCActtc  >  2:264381/1‑139 (MQ=255)                                                                                                               |                                                                                                                            GGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTACTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTC  >  NC_000913/1189593‑1189826

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑