Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	965,365	T→C	M174T (ATG→ACG)	ycaQ →	winged helix DNA‑binding protein YcaQ

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	965,365	0	T	C	100.0%	62.7 / NA	18	M174T (ATG→ACG)	ycaQ	winged helix DNA‑binding protein YcaQ
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (10/8);  total (10/8)

AGCATCCTCGTAAAGGTGCAAGCGGCTGGTGGGAATGGAAGCCGCATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGATGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGATGATGAGCGCGATC  >  NZ_CP009273/965278‑965445                                                                                        |                                                                                 aGCATCCTCGTAAAGGTGCAAGCGGCTGGTGGGAATGGAAGCCGCATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAggtgacggt                                                                               >  1:809503/1‑91 (MQ=255)              aGGTGCAAGCGGCTGGTGGGAATGGAAGCCGCATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGgcgc                                                                  <  1:154138/91‑1 (MQ=255)                gTGCAAGCGGCTGGTGGGAATGGAAGCCGCATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCaa                                                                >  1:855423/1‑91 (MQ=255)                  gCAAGCGGCTGGTGGGAATGGAAGCCGCATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACt                                                              >  2:237070/1‑91 (MQ=255)                                             cATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCAcc                                   <  1:473262/91‑1 (MQ=255)                                             cATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCAcc                                   <  1:136529/91‑1 (MQ=255)                                                 aaCGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCgtgt                               <  2:809503/91‑1 (MQ=255)                                                      cATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGc                          >  1:63264/1‑91 (MQ=255)                                                      cATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGc                          >  1:192782/1‑91 (MQ=255)                                                      cATCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGc                          >  2:666829/1‑91 (MQ=255)                                                       aTCTGGAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGcc                         <  1:71153/91‑1 (MQ=255)                                                           ggAAGGTTTATTTACTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGAc                     <  2:435931/91‑1 (MQ=255)                                                                  ttatttaCTGCCGGAAAGGAGACGGTGATTGAACGCCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGgatg              >  2:828465/1‑91 (MQ=255)                                                                      ttaCTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGAtgatga          <  2:639795/91‑1 (MQ=255)                                                                        aCTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGATGATGAgc        <  2:284663/91‑1 (MQ=255)                                                                         cTGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGATGATGAgcg       >  1:561415/1‑91 (MQ=255)                                                                          tGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGATGATGAgcgc      >  1:211180/1‑91 (MQ=255)                                                                          tGCCGGAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGATGATGAgcgc      >  2:639206/1‑91 (MQ=255)                                                                              ggAAAGGTGACGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGATGATGAGCGCGAtc  >  1:857148/1‑91 (MQ=255)                                                                                        |                                                                                 AGCATCCTCGTAAAGGTGCAAGCGGCTGGTGGGAATGGAAGCCGCATAAACGGCATCTGGAAGGTTTATTTACTGCCGGAAAGGTGATGGTGATTGAACGGCGCAACTTCCAGCGCGTTTATGATTTAACCCACCGTGTCATGCCTGACTGGGATGATGAGCGCGATC  >  NZ_CP009273/965278‑965445

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 17 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑