Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	W3110S.gb	1653909	1654011	103	8 [0]	[0] 11	intQ	predicted defective integrase

TGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGC  >  W3110S.gb/1653846‑1653908                                                               | tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:1277702/1‑63 (MQ=255) tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:1680627/1‑63 (MQ=255) tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:1978635/1‑63 (MQ=255) tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:20644/1‑63 (MQ=255) tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:2285451/1‑63 (MQ=255) tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:471970/1‑63 (MQ=255) tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:577105/1‑63 (MQ=255) tgCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGc  >  1:720105/1‑63 (MQ=255)                                                               | TGCACTTGGATGGGAGGACATAGATCTGAAAAATGGAACAATGATGATCAGGAGAAATTTAGC  >  W3110S.gb/1653846‑1653908

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: ‑