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%	76.2 / 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 (13/9);  total (13/9)

GTTTTCCCACTTCGCAAGGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTACTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTT  >  NC_000913/1189576‑1189828                                                                                                                                |                                                                                                                              gTTTTCCCACTTCGCAAGGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGcc                                                                                                                    <  2:4525/139‑1 (MQ=255)            tCGCAAGGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAg                                                                                                         >  2:966376/1‑139 (MQ=255)            tCGCAAGGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAg                                                                                                         >  2:17763/1‑139 (MQ=255)                       taGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTg                                                                                                                      >  1:147272/1‑115 (MQ=255)                       taGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTg                                                                                                                      <  2:147272/115‑1 (MQ=255)                              gATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCga                                                                                       >  2:520066/1‑139 (MQ=255)                                   ctctCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGaaaa                                                                                                     >  1:296542/1‑120 (MQ=255)                                   ctctCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGaaaa                                                                                                     <  2:296542/120‑1 (MQ=255)                                   ctctCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCg                                                                                  >  2:747437/1‑139 (MQ=255)                                   ctctCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCg                                                                                  <  1:17763/139‑1 (MQ=255)                                                       aaaCGTAGTTTTATCGAAACTGACTCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAAt                                                              >  1:684679/1‑139 (MQ=255)                                                                   aTCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGATGCAGTAATTTTTTCATCAgc                                                  <  2:684679/139‑1 (MQ=255)                                                                                            aGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGcc                         <  1:966376/139‑1 (MQ=255)                                                                                                 gACCATTCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAAGTCGAACAGATAGCCCTGGCCGCGaa                    >  1:690091/1‑139 (MQ=255)                                                                                                      ttCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACggtg               >  1:11497/1‑139 (MQ=255)                                                                                                       tCCGTAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACggtgg              >  1:417864/1‑139 (MQ=255)                                                                                                           tAGGCAAGCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAAt          <  1:747437/139‑1 (MQ=255)                                                                                                                  gCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACggtg               >  2:310490/1‑127 (MQ=255)                                                                                                                  gCGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACggtg               <  1:310490/127‑1 (MQ=255)                                                                                                                   cGAAAGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCActtctt  >  1:514818/1‑139 (MQ=255)                                                                                                                       aGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTtcat                                                      <  2:215771/83‑1 (MQ=255)                                                                                                                       aGCACCAGTGCTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTtcat                                                      >  1:215771/1‑83 (MQ=255)                                                                                                                                |                                                                                                                              GTTTTCCCACTTCGCAAGGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGACCATTCCGTAGGCAAGCGAAAGCACCAGTACTACCGCTGCCGTTGCCAACAGAAAACGTACCCGCAGCGAGAGCGGGAAAAAAAGACGCAGTAATTTTTTCATCAGCGCAATTCGAACAGATAGCCCTGGCCGCGAACGGTGGTAATCACTTCTT  >  NC_000913/1189576‑1189828

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: ‑