Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,189,597	A→G	Y60Y (TAT→TAC)	phoQ ←	sensory histidine kinase PhoQ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,189,597	0	A	G	100.0%	93.6 / NA	27	Y60Y (TAT→TAC)	phoQ	sensory histidine kinase PhoQ
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (14/13);  total (14/13)

TGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGAC  >  NC_000913/1189524‑1189674                                                                          |                                                                              tggtggGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACa                                                                        <  1:214188/81‑1 (MQ=255)       ggCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGc                                                                  >  2:214219/1‑81 (MQ=255)        gCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGct                                                                 <  1:214189/81‑1 (MQ=255)            tGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCtctc                                                              <  2:214190/80‑1 (MQ=255)              cTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGcc                                                           <  2:214191/81‑1 (MQ=255)              cTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGc                                                            >  1:214234/1‑80 (MQ=255)              cTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGc                                                            >  1:214220/1‑80 (MQ=255)                    gATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTaa                                                     >  1:214217/1‑81 (MQ=255)                       atTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAg                                                  >  2:214227/1‑81 (MQ=255)                       atTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAg                                                  >  2:214224/1‑81 (MQ=255)                          ttCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGcc                                                <  1:214192/80‑1 (MQ=255)                            cGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGa                                              >  2:214215/1‑80 (MQ=255)                                  aCTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTa                                        <  1:214193/80‑1 (MQ=255)                                      gACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGtttt                                   <  2:214194/81‑1 (MQ=255)                                       aCATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTa                                  >  1:214216/1‑81 (MQ=255)                                        cATGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTAt                                 <  1:214195/81‑1 (MQ=255)                                         aTGCAACTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATc                                >  1:214233/1‑81 (MQ=255)                                              aCTTATTGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAAc                           >  2:214223/1‑81 (MQ=255)                                                    tGTTTTCCCACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGc                     >  2:214222/1‑81 (MQ=255)                                                          cccACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATaa                <  1:214196/80‑1 (MQ=255)                                                           ccACTTCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAAcc              >  1:214235/1‑81 (MQ=255)                                                               ttCGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGAt           >  1:214226/1‑80 (MQ=255)                                                                 cGCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCa         <  1:214197/80‑1 (MQ=255)                                                                  gCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAgc       >  2:214225/1‑81 (MQ=255)                                                                  gCAAGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAg        <  2:214198/80‑1 (MQ=255)                                                                     aGGGTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGcgcg    <  2:214199/81‑1 (MQ=255)                                                                       ggTGTAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGAc  <  1:214200/81‑1 (MQ=255)                                                                          |                                                                              TGGTGGGGCTTTGCTTGTCGATATTTTCGGGTAACTCGACATGCAACTTATTGTTTTCCCACTTCGCAAGGGTATAGAACAGATTGCTCTCGCCACGTAACAGCCGAAACGTAGTTTTATCGAAACTGACGCTATAACCGATCAGCGCGAC  >  NC_000913/1189524‑1189674

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑