Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	USA300TCH1516_ALE	465964	466062	99	2 [1]	[0] 2	[lpl2_4]	[lpl2_4]

GAGATATAAAGGGGTCTTCTGTAGGATATAAGGAAATAGAAATCATATTTAGTAGAAGTAAAGAAGAAAGCATTTATTATGTTGACAGCGTTGAGTTCGTTCCAAGTAACAAAATAACAAAAAGTTGATATTAGTCAACAAAAGCAAATATTGAGAATAAAG  >  USA300TCH1516_ALE/465823‑465984                                                                                                                                             |                      gagaTATAAAGGGGTCTTCTGTAGGATATAAGGAAATAGAAATCATATTTAGTAGAAGTAAAGAAGAAAGCATTTATTATGTTGACAGCGTTGAGTTCGTTCCAAGTAACAAAATAACAAAAAGTTGATATTAGTcaacaa                       >  2:49262/1‑141 (MQ=255)                      tAGGATATAAGGAAATAGAAATCATATTTAGTAGAAGTAAAGAAGAAAGCATTTATTATGTTGACAGCGTTGAGTTCGTTCCAAGTAACAAAATAACAAAAAGTTGATATTAGTCAACAAAAGCAAATATTGAGAATAAag  <  2:29902/141‑1 (MQ=255)                                                                                                                                             |                      GAGATATAAAGGGGTCTTCTGTAGGATATAAGGAAATAGAAATCATATTTAGTAGAAGTAAAGAAGAAAGCATTTATTATGTTGACAGCGTTGAGTTCGTTCCAAGTAACAAAATAACAAAAAGTTGATATTAGTCAACAAAAGCAAATATTGAGAATAAAG  >  USA300TCH1516_ALE/465823‑465984

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑