Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_017635	1636298	1636319	22	2 [1]	[1] 2	ECW_RS08125	RHS element core protein

GCGGAGCATTCACTTTGAGCCGCTGCTGCCGGGGGAGGCGGTGTACAGCCGCAGTG  >  NC_017635/1636314‑1636369       |                                                  gcggAGCATTCACTTTGAGCCGCTGCTGCCGGGGGAGGCGGTGTACAGcc        <  2:1607148/50‑1 (MQ=40)       cATTCACTTTGAGCCGCTGCTGCCGGGGGAGGCGGTGTACAGCCGCAGTg  <  1:1542242/50‑1 (MQ=255)       |                                                  GCGGAGCATTCACTTTGAGCCGCTGCTGCCGGGGGAGGCGGTGTACAGCCGCAGTG  >  NC_017635/1636314‑1636369

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑