Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	1,544,022	C→A	L13F (TTG→TTT)	narU ←	nitrate/nitrite transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	1,544,022	0	C	A	100.0%	128.5 / NA	39	L13F (TTG→TTT)	narU	nitrate/nitrite transporter
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (21/18);  total (21/18)

ATTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑C‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGG  >  NC_000913_3_pae_tpiA/1543878‑1544153                                                                                                                                                   |                                                                                                                                      aTTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑A‑aa‑aa                                                                                                                                 <  2:1231655/149‑1 (MQ=255)                    gcgcTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATACCGACTATTTTtct                                                                                                               >  2:1273142/1‑149 (MQ=255)                      gcTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGCGG‑A‑AA‑AAGATAACGACTATTTTTCTCa                                                                                                             >  1:1188570/1‑149 (MQ=255)                            tAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGc                                                                                                       >  2:168131/1‑149 (MQ=255)                                aTCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑AAAA‑AAGATAACGACTATTTTTCTCATTTTGCAGTg                                                                                                   >  2:937538/1‑149 (MQ=255)                                    aGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCat                                                                                               >  2:382176/1‑149 (MQ=255)                                          aGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGc                                                                                                  >  2:996155/1‑140 (MQ=255)                                          aGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGc                                                                                                  <  1:996155/140‑1 (MQ=255)                                               gCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGGGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑AAAA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTca                                                                                    >  2:854786/1‑149 (MQ=255)                                                cAAGCAGTGGACAGCTGACTGTGATCTAGAGTTTTCCTCTAGCAACTTTGTTTCCTTTATTTTCCCAGAAGGCCGGATGGTCTGTTTTCCAGTCGC‑G‑A‑AATAAGATAACGACTGTTGTTCTCATTTTGCAGTGCCATATTGTTCCTcac                                                                                   <  2:324650/149‑1 (MQ=255)                                                cAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTcac                                                                                   <  1:382176/149‑1 (MQ=255)                                                  agaagGAGACAACTGACTGATATTCAGAGATTTCTGCGAGCAATATGTTTTCCTTTATTTTCCCAGAAAGCTGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACAt                                                                                 <  1:1144259/149‑1 (MQ=255)                                                    aagTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGc                                                                               >  1:732005/1‑149 (MQ=255)                                                    aagTAGACAACTGACTGATAGCAAGAGATTTCTTCGAGCATCGCGTGTGCCTTTATTTTCGATCACATCCGGAGTGTCTGGTTTCCAGTCGC‑G‑AAAA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGc                                                                               >  2:1387881/1‑149 (MQ=255)                                                     agTAGACAACTGACTGATATCCAGAGAATTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGca                                                                              <  2:955505/149‑1 (MQ=255)                                                         gACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑AAAA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGcacaca                                                                          >  2:107684/1‑149 (MQ=255)                                                           cAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATGTTTCAGTGCCATATTGTTCCTCACAGGGAGACAtt                                                                        >  1:164198/1‑149 (MQ=255)                                                              ctgactgaTATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTCTTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGt                                                                     <  1:1138647/149‑1 (MQ=255)                                                                         ccAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGaaaaaaa                                                          >  2:1178048/1‑149 (MQ=255)                                                                           agagATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTTCCGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGa                                                        >  1:398916/1‑149 (MQ=255)                                                                           agagATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑AAAA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTTGTAATGAAAAAAAGa                                                        >  1:881940/1‑149 (MQ=255)                                                                               aTTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACaaa                                                    <  1:168131/149‑1 (MQ=255)                                                                                  tcttcGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCATTGCCATATTGTTACTCCCATGCACACATTGGTAATTAAACAAAGACAAAaca                                                 >  2:411601/1‑149 (MQ=255)                                                                                  tcttcGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAACAGAGACAAAaca                                                 >  2:947433/1‑149 (MQ=255)                                                                                    ttcGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑A‑AAGAAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACg                                               >  1:1255613/1‑149 (MQ=255)                                                                                        atcAATATGTTTTCCTTTCTTTTCCCAGAAGGCCGGATTTTTTGGTTGCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTCCTCATTTTGCAGTGCCATATTGTTCTTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGt                                           <  2:219365/147‑1 (MQ=255)                                                                                           aaTATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAg                                        <  1:1313073/149‑1 (MQ=255)                                                                                               tGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGgcgc                                    <  1:806339/149‑1 (MQ=255)                                                                                                  tttCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAAt                                 >  2:82667/1‑149 (MQ=255)                                                                                                     ccTTTATTTTCCCAGAAGCCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGc                              <  1:634590/149‑1 (MQ=255)                                                                                                       tttATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACCTGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCa                            >  1:997405/1‑149 (MQ=255)                                                                                                          aTTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGtt                         <  1:1178048/149‑1 (MQ=255)                                                                                                                       gCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAg                                             <  2:198063/116‑1 (MQ=255)                                                                                                                       gCCGGATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAg                                             >  1:198063/1‑116 (MQ=255)                                                                                                                           gATTTTCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCTGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCACAATAGCCAGTCATTCAAATTAAgattac        >  2:1441281/1‑144 (MQ=255)                                                                                                                                tCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTgg   <  1:1387881/149‑1 (MQ=255)                                                                                                                                tCTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGAAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTgg   <  1:356209/149‑1 (MQ=255)                                                                                                                                tCTGGTTTCCAGTCGC‑G‑AAAA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTgg   <  1:350709/149‑1 (MQ=255)                                                                                                                                 cTGGTTTCCAGTCGC‑GAA‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTggg  <  2:881940/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                      ATTGAGATTAACGGTAACTGCGCTAAATAGCATCCAGACACAGAAGGCAAGAAGTAGACAACTGACTGATATCCAGAGATTTCTTCGAGCAATATGTTTTCCTTTATTTTCCCAGAAGGCCGGATTTTCTGGTTTCCAGTCGC‑G‑C‑AA‑AAGATAACGACTATTTTTCTCATTTTGCAGTGCCATATTGTTCCTCACATGCACACATTGGTAATGAAAAAAAGACAAAACACGAGGTAAGGCGCAATAGCCAGTTATTAGAATTAAGGATGAATTGGG  >  NC_000913_3_pae_tpiA/1543878‑1544153

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑