Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	3,103,871	(A)7→6	intergenic (+71/+78)	BW25113_RS15410 → / ← yghD	tRNA‑Phe/GspM family type II secretion system protein YghD

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	3,103,865	0	A	.	100.0%	117.9 / NA	29	intergenic (+65/+84)	BW25113_RS15410/yghD	tRNA‑Phe/GspM family type II secretion system protein YghD
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base . (14/15);  total (14/15)

AGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTT  >  NZ_CP009273/3103780‑3103949                                                                                      |                                                                                     aGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGaaaaa                                                                                  >  1:901282/1‑90 (MQ=255)     tCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGaaaaaatta                                                                              <  2:469658/90‑4 (MQ=255)      ccGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGaaaaaattag                                                                             <  1:795189/90‑5 (MQ=255)             cGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATaa                                                                     <  1:114012/90‑1 (MQ=255)                        aaTTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGaaaaaatta                                                                              >  2:676279/1‑68 (MQ=255)                        aaTTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGaaaaaatta                                                                              <  1:676279/71‑4 (MQ=255)                             ttAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTAc                                                     >  2:896584/1‑90 (MQ=255)                             ttAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTAc                                                     >  1:546021/1‑90 (MQ=255)                               aaGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTActc                                                   >  1:532523/1‑90 (MQ=255)                               aaGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTActc                                                   >  1:607039/1‑90 (MQ=255)                                   aCCCGCCCCCAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGc                                               <  2:827875/90‑1 (MQ=255)                                     ccGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCa                                             <  1:795808/90‑1 (MQ=255)                                      cGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCAc                                            >  2:667488/1‑90 (MQ=255)                                        cccACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGt                                          <  1:896584/90‑1 (MQ=255)                                              aGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACga                                    >  1:433570/1‑90 (MQ=255)                                                  gggTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGt                                <  1:762267/90‑1 (MQ=255)                                                  gggTTTTTGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGt                                <  2:766403/90‑1 (MQ=255)                                                      ttttGCTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAAtt                            >  2:163668/1‑90 (MQ=255)                                                           cTTTTGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTAtt                       <  2:20065/90‑1 (MQ=255)                                                              ttGGATCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGat                    <  2:435622/90‑1 (MQ=255)                                                                  aTCTGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTa                <  2:504962/90‑1 (MQ=255)                                                                     tGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAAtc             >  2:546124/1‑90 (MQ=255)                                                                     tGACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAAtc             <  2:867361/90‑1 (MQ=255)                                                                      gACAATAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAAtct            <  2:901282/90‑1 (MQ=255)                                                                          aTAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTAtt                       <  2:424577/75‑1 (MQ=255)                                                                          aTAACCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTAtt                       >  1:424577/1‑75 (MQ=255)                                                                            aaCCTTCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCCCGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGAt      <  2:546021/90‑1 (MQ=255)                                                                                ttCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGc                                               <  2:328068/45‑1 (MQ=255)                                                                                ttCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGc                                               >  1:328068/1‑45 (MQ=255)                                                                                ttCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGAt      <  2:611851/86‑1 (MQ=255)                                                                                ttCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGAt      >  1:611851/1‑86 (MQ=255)                                                                                ttCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACtt  >  2:251817/1‑90 (MQ=255)                                                                                ttCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACtt  >  1:264882/1‑90 (MQ=255)                                                                                ttCACG‑AAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGGAATTTTATTGATATTAATCTCCTGATACtt  >  2:823374/1‑90 (MQ=255)                                                                                      |                                                                                     AGATTCCGAGTCCGGGCACCACTAATTCTTAAGAACCCGCCCACAAGGCGGGTTTTTGCTTTTGGATCTGACAATAACCTTCACGAAAAAAATTAGCTTATAAAGTCTGGGGGAATTACTCTCGCCACGTTAACGAGAGTAATTTTATTGATATTAATCTCCTGATACTT  >  NZ_CP009273/3103780‑3103949

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 19 ≤ ATCG/ATCG < 29 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑