Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	280,128	T→C	F406S (TTC→TCC)	yagF →	xylonate dehydratase YagF

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	280,128	0	T	C	100.0%	52.0 / NA	16	F406S (TTC→TCC)	yagF	xylonate dehydratase YagF
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (9/7);  total (9/7)

CGCGGGCGGCGTGCCGGAGGTGATGCTCCACCTGCGCGACCTCGGCCTGCTGCATCTGGACGCCATGACCGTGACCGGCCAGACGGTGGGCGAGAACCTTGAATGGTGGCAGGCGTCCGAGCGCCGGGCGCGCTTCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGCAACATCGCTCCGG  >  NZ_CP009273/279994‑280250                                                                                                                                       |                                                                                                                           cgcgGGCGGCGGGCCGGAGGGGATGCCCCCCCTGCGCGCCCTGGCCCTGCTGCATCTGGACGCCATGCCCGTGCCCGGCCAGCGGGTGGGCGAAAACCTGGAATGGTGGCAGGCGCCCGAGCGCCGGGCGCGCTCCCGc                                                                                                                        <  2:636514/139‑1 (MQ=255)                     tGATGCTCCACCTGCGCGACCTCGGCCTGCTGCATCTGGACGCCATGACCGTGACCGGCCAGACGGTGGGCGAGACCCTTGAATGGTGGCGGGCGTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGa                                                                                                    <  1:201327/139‑1 (MQ=255)                     tGATGCCCCCCCTGCGCGCCCTCGGCCTGCTGCATCGGGACGCAATGACCGTGCCCGGCCAGACGGGGGGGGAGAACCTTGAAGGGTGGCGGGCGTCCGAGCGCGGGGGGCGCTCCCGCCAGTGCCTGCGCGAGCAGGa                                                                                                    <  1:522816/139‑1 (MQ=255)                       aTGCTCCACCTGCGCGACCTCGGCCTGCTGCATCTGGACGCCATGACCGTGACCGGCCAGACGGTGGGCGAGAACCTTGAATGGTGGCAGGCGTCCGAGCGCCGGGCGCGCCCCCGCCAGGGCCTGGGCGAGCAGGACg                                                                                                  >  1:99223/1‑139 (MQ=255)                                   cgcgACCTCGGCCTGCTGCATCTGGACGCCATGACCGTGACCGGCCAGACGGTGGGCGAGAACCTTGAATGGTGGCAGGCGTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCg                                                                                       >  1:65437/1‑138 (MQ=255)                                                  ctgcATCTGGACGCCATGACCGTGACCGGCCAGACGGTGGGCGAGAACCTTGAATGGTGGCAGGCGTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTgc                                                                       >  2:113217/1‑139 (MQ=255)                                                       tCTGGACGCCATGACCGTGACCGGCCAGACGGTGGGCGAGAACCTTGAATGGTGGCAGGCGTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGccgccg                                                                  >  1:527343/1‑139 (MQ=255)                                                                cATGACCGTGACCGGCCAGACGGTGGGCGAGAACCTTGAATGGTGGCAGGCGTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGc                                                          >  1:70702/1‑138 (MQ=255)                                                                       gtgccgggCCAGACGGTGGGCGAGAACCTTGATTGGTGGCAGGCGTCCGGGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGa                                                  <  1:162708/133‑1 (MQ=255)                                                                            cgGCCAGACGGTGGGCGAGAACCTTGAATGGGGGCAGGCGCCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAggg                                             <  1:210903/139‑1 (MQ=255)                                                                                                           tggCAGGCGTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGc               >  1:390076/1‑138 (MQ=255)                                                                                                                  cGTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGCAACATCGc       >  2:410090/1‑139 (MQ=255)                                                                                                                   gTCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGCAACATCGCt      >  2:396524/1‑139 (MQ=255)                                                                                                                    tCCGAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGCAACATCGCTc     >  2:86987/1‑139 (MQ=255)                                                                                                                       gAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGCAACATCGCTCCgg  <  1:113217/139‑1 (MQ=255)                                                                                                                       gAGCGCCGGGCGCGCTCCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGCAACATCGCTCCgg  <  1:86987/139‑1 (MQ=255)                                                                                                                                       |                                                                                                                           CGCGGGCGGCGTGCCGGAGGTGATGCTCCACCTGCGCGACCTCGGCCTGCTGCATCTGGACGCCATGACCGTGACCGGCCAGACGGTGGGCGAGAACCTTGAATGGTGGCAGGCGTCCGAGCGCCGGGCGCGCTTCCGCCAGTGCCTGCGCGAGCAGGACGGCGTAGAGCCGGATGACGTGATCCTGCCGCCGGAGAAGGCAAAAGCGAAAGGGCTGACCTCGACGGTCTGCTTCCCGACGGGCAACATCGCTCCGG  >  NZ_CP009273/279994‑280250

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑