Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	2,076,801	+TG	intergenic (+6/‑115)	flu → / → yeeR	antigen 43 (Ag43) phase‑variable biofilm formation autotransporter/predicted membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	2,076,801	1	.	T	100.0%	79.6 / NA	33	intergenic (+6/‑115)	flu/yeeR	antigen 43 (Ag43) phase‑variable biofilm formation autotransporter/predicted membrane protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base T (33/0);  total (33/0)
*	W3110S.gb	2,076,801	2	.	G	100.0%	82.1 / NA	33	intergenic (+6/‑115)	flu/yeeR	antigen 43 (Ag43) phase‑variable biofilm formation autotransporter/predicted membrane protein
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (33/0);  total (33/0)

ACTGAATGTGACCTTCTGACAGAAC‑‑CATCGCCTCTCTGTGGTCCCGGTCATCATGACCGG  >  W3110S.gb/2076777‑2076836                          ||                                    tcTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:940647/2‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGt                    >  1:936904/1‑44 (MQ=9) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGt                    >  1:395821/1‑44 (MQ=9) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGt                    >  1:341524/1‑44 (MQ=9) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGt                    >  1:1007458/1‑44 (MQ=9) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGt                    >  1:1369532/1‑44 (MQ=9) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTccccg               >  1:1202520/1‑47 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTccc                 >  1:181413/1‑47 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTccc                 >  1:68150/1‑47 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTccc                 >  1:313170/1‑47 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTccc                 >  1:1085473/1‑47 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:1212501/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:81100/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:733099/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:726139/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:680674/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:458300/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:1103462/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:395590/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:1143025/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:275382/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:235639/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:1227420/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:176996/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:156520/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:1440198/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:1392961/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTcc                  >  1:1264332/1‑46 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTCCCGGt              >  1:1016751/1‑50 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTCCCGGt              >  1:1227851/1‑50 (MQ=255) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTCCCGGTCATCATGACCgg  >  1:794475/1‑62 (MQ=19) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTCCCGGTCATCATGACCgg  >  1:81725/1‑62 (MQ=19) acTGAATGTGACCTTCTGATAATTCTGCATTGCCTCTCTGTGGTCCCCGt              >  1:108352/1‑50 (MQ=255)                          ||                                    ACTGAATGTGACCTTCTGACAGAAC‑‑CATCGCCTCTCTGTGGTCCCGGTCATCATGACCGG  >  W3110S.gb/2076777‑2076836

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑