Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	USA300TCH1516_ALE	566125	566217	93	2 [1]	[1] 2	nupC_2	Nucleoside permease NupC

AGTTTTGTCGCCATAACTGAACCGGCTTGAACTGCATCTTGCCATGGCACACCGACTAAGAATGCAAATGGTGCAAAGACAAAACCAATTAATGTTTGGAAATCCCAAGAAATAGCGCCACCTGAAACTGTACTAAAGATATTGCTTACAATTCCATTTAATAGAGCGA  >  USA300TCH1516_ALE/565984‑566152                                                                                                                                             |                             aGTTTTGTCGCCATAACTGAACCGGCTTGAACTGCATCTTGCCATGGCACACCGACTAAGAATGCAAATGGTGCAAAGACAAAACCAATTAATGTTTGGAAATCCCAAGAAATAGCGCCACCTGAAACTGTACTAAAGata                              <  2:36676/141‑1 (MQ=255)                             gAACTGCATCTTGCCATGGCACACCGACTAAGAATGCAAATGGTGCAAAGACAAAACCAATTAATGTTTGGAAATCCCAAGAAATAGCGCCACCTGAAACTGTACTAAAGATATTGCTTACAATTCCATTTAATAGAGCGa  <  2:43682/141‑1 (MQ=255)                                                                                                                                             |                             AGTTTTGTCGCCATAACTGAACCGGCTTGAACTGCATCTTGCCATGGCACACCGACTAAGAATGCAAATGGTGCAAAGACAAAACCAATTAATGTTTGGAAATCCCAAGAAATAGCGCCACCTGAAACTGTACTAAAGATATTGCTTACAATTCCATTTAATAGAGCGA  >  USA300TCH1516_ALE/565984‑566152

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: ‑