Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,348,177	A→G	Q71R (CAG→CGG)	npr →	phosphorelay protein Npr

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,348,177	0	A	G	100.0%	87.6 / NA	25	Q71R (CAG→CGG)	npr	phosphorelay protein Npr
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (10/15);  total (10/15)

TTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCACGTACTGAAATCG  >  NC_000913/3348041‑3348308                                                                                                                                         |                                                                                                                                    ttAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACggga                                                                                                                                  <  2:341993/140‑1 (MQ=255)         gggTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACggga                                                                                                                                  >  2:316068/1‑132 (MQ=255)         gggTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACggga                                                                                                                                  <  1:316068/132‑1 (MQ=255)                gACGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGgc                                                                                                                   <  2:180793/140‑1 (MQ=255)                  cGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGgccg                                                                                                                 <  2:246160/140‑1 (MQ=255)                  cGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGgccg                                                                                                                 <  1:43390/140‑1 (MQ=255)                           gCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCg                                                                                                        >  2:87197/1‑140 (MQ=255)                             tctTACGTAATGACGAAGGCCCCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGcc                                                                                                      <  1:191051/140‑1 (MQ=255)                                 aCGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCctct                                                                                                  >  2:254702/1‑140 (MQ=255)                                      aTGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAAt                                                                                             >  2:213788/1‑140 (MQ=255)                                       tGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAAtt                                                                                            <  2:340971/140‑1 (MQ=255)                                             aGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGtt                                                                                      >  2:269871/1‑140 (MQ=255)                                                   cGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTtgatg                                                                                >  1:55394/1‑140 (MQ=255)                                                   cGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTtgatg                                                                                <  1:87197/140‑1 (MQ=255)                                                   cGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTtgatg                                                                                <  2:128907/140‑1 (MQ=255)                                                   cGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTtgatg                                                                                <  1:254702/140‑1 (MQ=255)                                                                    gCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTtcatca                                                               <  1:269871/140‑1 (MQ=255)                                                                             cgcTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACAt                                                      >  2:281464/1‑140 (MQ=255)                                                                              gctgctGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATa                                                     <  1:213788/140‑1 (MQ=255)                                                                               ctgctgATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTg                                                          <  1:40690/134‑1 (MQ=255)                                                                               ctgctgATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTg                                                          >  2:40690/1‑134 (MQ=255)                                                                                                                     agttgaagCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTccccc                                <  2:301025/122‑1 (MQ=255)                                                                                                                     agttgaagCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTccccc                                >  1:301025/1‑122 (MQ=255)                                                                                                                     agttgaagCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCAc              >  2:227540/1‑140 (MQ=255)                                                                                                                           agCGACCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCACGTACTg        <  1:281464/140‑1 (MQ=255)                                                                                                                               aCCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCACg             <  2:196286/131‑1 (MQ=255)                                                                                                                               aCCGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCACg             >  1:196286/1‑131 (MQ=255)                                                                                                                                 cGGTCCACGGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCACGTACTGAAATCg  <  2:111410/140‑1 (MQ=255)                                                                                                                                         |                                                                                                                                    TTAATGCAGGGTTTTGACGCTGAAGTGCTCTTACGTAATGACGAAGGCACCGAGGCTGAAGCCAACAGCGTTATTGCGCTGCTGATGTTGGATTCTGCCAAAGGACGGCAGATTGAAGTTGAAGCGACCGGTCCACAGGAAGAGGAAGCACTGGCCGCCGTTATCGCCCTCTTTAATTCTGGTTTTGATGAAGATTAATCTTCATCACTTTGACATACAACTCCCTTCAAACTCCCCCCGACAATAAGAAAATCACGTACTGAAATCG  >  NC_000913/3348041‑3348308

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑