Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NZ_CP009273	1407142	1407167	26	3 [1]	[1] 2	intR	site‑specific integrase

ATCCAGGTAAAGCGTTTCTCCATGCAGCAGTTCATTCCGGTAGTTTAAGATATCGCTATAACGAATATGTGATATCGGGGTACTTTCACAAATTATT  >  NZ_CP009273/1407052‑1407148                                                                                          |        aTCCAGGTAAAGCGTTTCTCCATGCAGCAGTTCATTCCGGTAGTTTAAGATATCGCTATAACGAATATGTGATATCGGGGTACTTTcaca         >  1:327622/1‑90 (MQ=255) aTCCAGGTAAAGCGATTTTCCATGCAGCAGTTCATTCCGGTACGTTAAGATATCGCTATAACGAATATGTGATATCGGAGTACTTTcaca         >  2:426489/1‑90 (MQ=255)        tAAAGCGTTTCTCCATGCAGCAGTTCATTCCGGTAGTTTAAGATATCGCTATAACGAATATGTGATATCGGGGTACTTTCACAAattatt  <  1:130679/90‑1 (MQ=255)                                                                                          |        ATCCAGGTAAAGCGTTTCTCCATGCAGCAGTTCATTCCGGTAGTTTAAGATATCGCTATAACGAATATGTGATATCGGGGTACTTTCACAAATTATT  >  NZ_CP009273/1407052‑1407148

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑