Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_002947	5,488,151	G→A	E494K (GAG→AAG)	PP_4824 →	two‑component system sensor histidine kinase/response regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,488,151	0	G	A	100.0%	107.9 / NA	32	E494K (GAG→AAG)	PP_4824	two‑component system sensor histidine kinase/response regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (19/13);  total (19/13)

GCTGACGCTGATCAACGAAATTCTGGACATTTCCAAGCTGGAATCCCGGCAGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCGAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGATCCTGCTGGTGGTGGCGCTGGATC  >  NC_002947/5488009‑5488295                                                                                                                                               |                                                                                                                                                 gctgACGCTGATCAACGAAATTCTGGACATTTCCAAGCTGGAATCCCGGCAGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTg                                                                                                                                             >  1:9831/1‑148 (MQ=255)           aTCAACGAAATTCTGGACATTTCCAAGCTGGAATCCCGGCAGCTCGAGCTGGATGACGTGCAGATCGACCTTAACGCGCTGATCGAGGATAGCCTGAACATCTTCCGCGCCAAGGACGAGCAACAGAGCATCAAGCTGCTCAGCTTCa                                                                                                                                   >  5:193406/1‑148 (MQ=255)            tCAACGAAATTCTGGACATTTCCAAGCTGGAATCCCGGCAGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCAc                                                                                                                                  >  4:69968/1‑148 (MQ=255)              aaCGAAATTCTGGACATTTCCAAGCTGGAATCCCGGCAGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCAc                                                                                                                                  >  1:78049/1‑146 (MQ=255)               aCGAAATTCTGGACATTTCCAAGCTGGAATCCCGGCAGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCa                                                                                                                               >  1:113434/1‑148 (MQ=255)                                               cGGCAGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGAcc                                                                                               >  1:129427/1‑148 (MQ=255)                                                   aGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGAc                                                                                           <  4:168190/148‑1 (MQ=255)                                                         aGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCt                                                                                     >  7:112045/1‑148 (MQ=255)                                                         aGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCt                                                                                     >  7:109364/1‑148 (MQ=255)                                                                   cGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGc                                                                            <  1:167275/147‑1 (MQ=255)                                                                     tGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCtt                                                                         >  1:97652/1‑148 (MQ=255)                                                                               ccTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCctg                                                               >  1:41788/1‑148 (MQ=255)                                                                                cTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGgaga                                                                                                 >  4:24899/1‑113 (MQ=255)                                                                                 ttAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGAc                                                                                                <  3:24899/113‑1 (MQ=255)                                                                                 ttAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCctgct                                                             <  2:113434/148‑1 (MQ=255)                                                                                     cgcgCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGaa                                                         <  3:40097/148‑1 (MQ=255)                                                                                      gcgcTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGaaa                                                        >  4:10498/1‑148 (MQ=255)                                                                                             tCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGcc                                                   <  1:85974/146‑1 (MQ=255)                                                                                                aGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGaa                                              <  3:69968/148‑1 (MQ=255)                                                                                                aGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGa                                               >  5:152063/1‑147 (MQ=255)                                                                                                   atggCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACAGCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGaaaaa                                           <  1:136443/145‑1 (MQ=255)                                                                                                   aTTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGaaaaa                                           <  5:45634/148‑1 (MQ=255)                                                                                                          gAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCAAAAGTACCGCGGCTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCCAGACAGCTGGAAAAAGCCCTGAAAAACACCGa                                     >  6:48689/1‑147 (MQ=255)                                                                                                                 ttCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAacac                                        >  3:77095/1‑137 (MQ=255)                                                                                                                  tCCGCGCCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACAcc                                       <  4:77095/137‑1 (MQ=255)                                                                                                                     gcgcCAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGAt                         >  2:25444/1‑148 (MQ=255)                                                                                                                         cAAGGCCGAGCAACAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGATCctg                     >  1:138149/1‑148 (MQ=255)                                                                                                                           aGGCCGAGCAACAGAACATCAAGCTTATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCACCGGAGACCCGACGCGTCTGCGCCAGCCCTTGTCGAGCCTGCTGGAAAACGCCGTGAAAAACACCGACCAGGGCTAGATCctgct                   <  5:48689/148‑1 (MQ=255)                                                                                                                                    aaCAGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGATCCTGCTGGTGGTGgc          >  8:129482/1‑148 (MQ=255)                                                                                                                                       aGAACATCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGATCCTGCTGGTGGTGGCGCt       <  2:78049/148‑1 (MQ=255)                                                                                                                                            aTCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGATCCTGCTGGTGGTGGCGCTGGAt   >  3:163218/1‑147 (MQ=255)                                                                                                                                            aTCAAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGATCCTGCTGGTGGTGGCGCTGGATc  <  3:10498/148‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                 GCTGACGCTGATCAACGAAATTCTGGACATTTCCAAGCTGGAATCCCGGCAGATCGAGCTGGATGACGTGCAGTTCGACCTTAACGCGCTGATCGAGGATTGCCTGAACATCTTCCGCGCCAAGGCCGAGCAACAGAACATCGAGCTGATCAGCTTCACCCAGCCACAAGTACCGCGGGTCATCAGCGGAGACCCGACGCGTCTGCGCCAGGCCTTGTCGAGCCTGCTGGAAAACGCCCTGAAAAACACCGACCAGGGCGAGATCCTGCTGGTGGTGGCGCTGGATC  >  NC_002947/5488009‑5488295

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑