Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	1,431,536	T→C	E1169G (GAA→GGA)	nifJ ←	pyruvate:ferredoxin (flavodoxin) oxidoreductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	1,431,536	0	T	C	100.0%	117.2 / NA	36	E1169G (GAA→GGA)	nifJ	pyruvate:ferredoxin (flavodoxin) oxidoreductase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (24/12);  total (24/12)

AAAAGACAAGCCCGAACAGTCGT‑CCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGTTCTGCC  >  NZ_CP009273/1431451‑1431616                                                                                       |                                                                                 aaaaGACAAGCCCGAACAGTCGT‑CCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGc                                                                              >  2:340271/1‑90 (MQ=255)       cAAACCCGAAAAGTCGTCCCGGGTTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTc                                                                         <  1:867658/90‑1 (MQ=255)         aGCCCGAACAGTCGT‑CCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCgg                                                                      >  2:1476131/1‑90 (MQ=255)         aGCCCGAACAGTCGT‑CCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCgg                                                                      >  2:1014005/1‑90 (MQ=255)              gAACAGTCGT‑CCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCAtt                                                                 >  2:523125/1‑90 (MQ=255)              gAACAGTCGT‑CCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCAtt                                                                 >  1:918806/1‑90 (MQ=255)                   gtcgt‑cCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGc                                                            >  1:126512/1‑90 (MQ=255)                     cgt‑cCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCa                                                          >  2:510948/1‑90 (MQ=255)                         ccGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGa                                                       <  2:918806/90‑1 (MQ=255)                                                        tATCCAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTgcagc                        >  2:948951/1‑90 (MQ=255)                                                           ccAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATc                     <  2:1022004/90‑1 (MQ=255)                                                           ccAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATc                     <  2:897875/90‑1 (MQ=255)                                                           ccAGAGCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATc                     <  1:1476131/90‑1 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCTCGCTTTTCCGGCCATTAGTGCCAGGAAATCATAGCGTTTTTGCAAATTAGCTGCAGCATCttt                  >  1:947035/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCAtt                                                                 <  1:166786/43‑1 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCAtt                                                                 >  2:166786/1‑43 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGc                              <  1:263733/78‑1 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGc                              >  2:263733/1‑78 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  2:986142/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  1:1316632/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  1:1425410/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  2:867924/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  1:167892/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  2:118146/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  1:1118535/1‑90 (MQ=255)                                                              gagCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCttt                  >  1:313339/1‑90 (MQ=255)                                                               agCATTTAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTc                 >  2:418296/1‑90 (MQ=255)                                                                   tttAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATc                     >  2:1331426/1‑82 (MQ=255)                                                                   tttAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATc                     <  1:1331426/82‑1 (MQ=255)                                                                   tttAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATa             >  1:220933/1‑90 (MQ=255)                                                                   tttAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATa             >  2:953443/1‑90 (MQ=255)                                                                     tAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAAc           <  1:953443/90‑1 (MQ=255)                                                                     tAATCGGTGTTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAAc           <  1:418296/90‑1 (MQ=255)                                                                           gtgtTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGTTCt     <  1:1433036/90‑1 (MQ=255)                                                                           gtgtTGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCATTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGTTCt     >  2:1410151/1‑90 (MQ=255)                                                                              ttGCTTTTTCCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGTTCTGcc  <  2:897624/90‑1 (MQ=255)                                                                                       |                                                                                 AAAAGACAAGCCCGAACAGTCGT‑CCGGGCTTTTTTTTTAGAATTGGATAATCCTTATCCAGAGCATTTAATCGGTGTTGCTTTTTTCCGCTTTTCCGGCCATTTGTGCCAGGAAGTCATAGCGTTTTTGCAAATCAGCTGCAGCATCTTTCCATAACTGTTCTGCC  >  NZ_CP009273/1431451‑1431616

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑