Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,505,986	T→C	intergenic (‑283/+7)	BW25113_RS17530 ← / ← trpS	GntR family transcriptional regulator YhfZ/tryptophan‑‑tRNA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,505,986	0	T	C	100.0%	166.2 / NA	48	intergenic (‑283/+7)	BW25113_RS17530/trpS	GntR family transcriptional regulator YhfZ/tryptophan‑‑tRNA ligase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (33/15);  total (33/15)

TTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGC  >  NZ_CP009273/3505901‑3506070                                                                                      |                                                                                     ttCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTg                                                                                  <  1:619670/90‑1 (MQ=255)  tCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGt                                                                                   <  2:989700/88‑1 (MQ=255)  tCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGt                                                                                   >  1:989700/1‑88 (MQ=255)  tCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGa                                                                                 >  2:853066/1‑90 (MQ=255)       gCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAg                                                                                    >  2:720472/1‑82 (MQ=255)       gCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAg                                                                                    <  1:720472/82‑1 (MQ=255)          atatGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGc                                                                         >  2:109294/1‑90 (MQ=255)            atGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCtt                                                                       >  2:954221/1‑90 (MQ=255)            atGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCtt                                                                       >  1:636461/1‑90 (MQ=255)             tgtgCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTc                                                                      <  1:412441/90‑1 (MQ=255)             tgtgCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTc                                                                      <  2:439037/90‑1 (MQ=255)                 cATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCca                                                                  >  2:1149950/1‑90 (MQ=255)                  aTTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCcac                                                                 >  1:948365/1‑90 (MQ=255)                  aTTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCcac                                                                 >  2:702412/1‑90 (MQ=255)                    tACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACaa                                                               >  1:121441/1‑90 (MQ=255)                    tACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACaa                                                               >  2:750157/1‑90 (MQ=255)                        ttGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAAcc                                                           >  2:128685/1‑90 (MQ=255)                        ttGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAAcc                                                           >  1:1031996/1‑90 (MQ=255)                          gTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCaa                                                         >  1:494667/1‑90 (MQ=255)                           tAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAAt                                                        <  1:753925/90‑1 (MQ=255)                             ggCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCg                                                      <  1:1098099/90‑1 (MQ=255)                             ggCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCg                                                      <  2:948365/90‑1 (MQ=255)                               ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCt                                                    >  2:1159501/1‑90 (MQ=255)                               ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCt                                                    >  2:1118337/1‑90 (MQ=255)                               ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCt                                                    >  2:161859/1‑90 (MQ=255)                               ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCt                                                    >  2:735347/1‑90 (MQ=255)                               ccGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCt                                                    >  2:551849/1‑90 (MQ=255)                                  gATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCg                                                 <  2:958288/90‑1 (MQ=255)                                    tAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTa                                               >  1:955186/1‑90 (MQ=255)                                    tAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTa                                               >  1:752677/1‑90 (MQ=255)                                      aGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTaca                                             <  1:1230453/90‑1 (MQ=255)                                      aGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTaca                                             >  1:833892/1‑90 (MQ=255)                                       ggCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTacac                                            <  1:416091/90‑1 (MQ=255)                                           ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAg                                                                                    >  2:410879/1‑46 (MQ=255)                                           ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAg                                                                                    <  1:410879/46‑1 (MQ=255)                                           ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCt                                        >  1:1022918/1‑90 (MQ=255)                                           ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCt                                        >  1:612941/1‑90 (MQ=255)                                           ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCt                                        >  1:1041841/1‑90 (MQ=255)                                           ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCt                                        >  1:1011423/1‑90 (MQ=255)                                            tCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCtt                                       >  2:1056800/1‑90 (MQ=255)                                              aCGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCtttt                                     <  1:540534/90‑1 (MQ=255)                                                 ccgcATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGc                                  >  2:810949/1‑90 (MQ=255)                                                 ccgcATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGc                                  >  2:950534/1‑90 (MQ=255)                                                   gcATCCGGCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGt                                <  1:308349/90‑1 (MQ=255)                                                         ggCATGAACAAAGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGa                          >  2:890039/1‑90 (MQ=255)                                                                    aGCGCAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGGACGGGAAGCGTgcgcgc               >  2:870168/1‑90 (MQ=255)                                                                        cAATTTGCCAGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGc           >  1:1138895/1‑90 (MQ=255)                                                                                 aGCAACAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCcgc  <  2:846629/90‑1 (MQ=255)                                                                                      |                                                                                     TTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGC  >  NZ_CP009273/3505901‑3506070

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑