Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,348,021	C→T	P19L (CCT→CTT)	npr →	phosphorelay protein Npr

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,348,021	0	C	T	100.0%	97.4 / NA	28	P19L (CCT→CTT)	npr	phosphorelay protein Npr
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (13/15);  total (13/15)

GTACGCTGGAAAAACGTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCCTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCACC  >  NC_000913/3347944‑3348091                                                                              |                                                                       gTACGCTGGAAAAACGTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTg                                                                      >  2:589006/1‑80 (MQ=255)   aCGCTGGAAAAACGTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCaa                                                                   >  2:589004/1‑81 (MQ=255)    cGCTGGAAAAACGTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAAt                                                                  <  2:588969/81‑1 (MQ=255)     gCTGGAAAAACGTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATg                                                                 <  1:588970/81‑1 (MQ=255)        ggAAAAACGTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAg                                                              >  2:589012/1‑81 (MQ=255)                gTAAACCATGACCGTCAGGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGa                                                      <  1:588971/81‑1 (MQ=255)                gTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGa                                                      <  1:588972/81‑1 (MQ=255)                   aaCCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAAtt                                                   <  2:588973/81‑1 (MQ=255)                             gTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGGAGCTGTTTGAATTAATGCAGGGt                                         >  2:588999/1‑81 (MQ=255)                                aaGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGtttt                                      <  2:588974/81‑1 (MQ=255)                                aaGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGttt                                       <  2:588975/80‑1 (MQ=255)                                   cAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGAc                                   >  2:589000/1‑81 (MQ=255)                                    aaaCTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACg                                  >  1:589017/1‑81 (MQ=255)                                       cTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCt                                >  1:589015/1‑80 (MQ=255)                                        tGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTg                               >  1:589011/1‑80 (MQ=255)                                         gTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTg                               >  2:589001/1‑79 (MQ=255)                                               aTCACAAACAAGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGctc                       <  1:588976/81‑1 (MQ=255)                                                   caaacaaGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTAc                   >  2:589008/1‑81 (MQ=255)                                                        aaGCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAAt              >  1:589005/1‑81 (MQ=255)                                                          gCTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGa            >  2:589003/1‑81 (MQ=255)                                                           cTGGGCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGAc           <  2:588977/81‑1 (MQ=255)                                                             gggCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACg          >  2:589010/1‑80 (MQ=255)                                                              ggCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACg          <  1:588978/79‑1 (MQ=255)                                                              ggCATGCATGCCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACg          <  1:588979/79‑1 (MQ=255)                                                                 atgcatgcCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGc     <  1:588980/81‑1 (MQ=255)                                                                    catgcCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCAcc  <  2:588983/81‑1 (MQ=255)                                                                    catgcCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCAcc  <  2:588982/81‑1 (MQ=255)                                                                    catgcCCGGCTTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCAcc  <  2:588981/81‑1 (MQ=255)                                                                              |                                                                       GTACGCTGGAAAAACGTAAACCATGACCGTCAAGCAAACTGTTGAAATCACAAACAAGCTGGGCATGCATGCCCGGCCTGCAATGAAGCTGTTTGAATTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCACC  >  NC_000913/3347944‑3348091

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑