Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	2,866,110	T→A	intergenic (‑20/+160)	rpoS ← / ← nlpD	RNA polymerase, sigma S (sigma 38) factor/predicted outer membrane lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	2,866,110	0	T	A	100.0%	99.2 / NA	31	intergenic (‑20/+160)	rpoS/nlpD	RNA polymerase, sigma S (sigma 38) factor/predicted outer membrane lipoprotein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base A (31/0);  total (31/0)

GCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCT  >  W3110S.gb/2866059‑2866125                                                    |                gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTctacta        >  1:2311864/1‑61 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:1251522/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:9530/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:894712/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:760074/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:61140/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:544463/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:2896256/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:2892990/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:2844398/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:1391012/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:1558458/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:2068819/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:2006155/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTaa       >  1:2411576/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTCCCAATTCTACTaa       >  1:1661798/1‑62 (MQ=255) gCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGCTTCCAATActacta        >  1:501089/1‑61 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCCCTGGGTTCCAATTCTACTAAGGCCt  >  1:2580693/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGcc   >  1:947148/1‑61 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:452462/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:1204480/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:1371529/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:610/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:594010/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:551156/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:2377571/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:2822481/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:2738086/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:2705047/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:2685251/1‑62 (MQ=255)      cTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCAATTCTACTAAGGCCt  >  1:2552750/1‑62 (MQ=255)                                                    |                GCTCCCTGCGATAACAGTTCCTCTTCGGCCAAATCGTTATCACTGGGTTCCTATTCTACTAAGGCCT  >  W3110S.gb/2866059‑2866125

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑