Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	CP000731	1	12780–12561	12561–12780	NA [0]	[1] 2	repA–[USA300HOU_pUSA300HOUMR0016]	repA,USA300HOU_pUSA300HOUMR0003,USA300HOU_pUSA300HOUMR0004,USA300HOU_pUSA300HOUMR0005,USA300HOU_pUSA300HOUMR0006,cadR,cadX,USA300HOU_pUSA300HOUMR0010,blaZ,blaR,blaI,USA300HOU_pUSA300HOUMR0014,USA300HOU_pUSA300HOUMR0015,[USA300HOU_pUSA300HOUMR0016]

ATAAAAGGAAAATGGAGCTATTTATATCGTGCCATTGATGCAGAGGGACATACATTAGATATTTGGTTGCGTAAGCAACGAGATAATCATTCAGCATATGCGTTTATCAAACGTCTCATTAAACAATTTGGTAAACCTCAAAAGGTAATTACAGATCAGGCACCTTCA  >  CP000731/12750‑12917                                |                                                                                                                                         aaaagaGGAAAATGGAGCTATTGATACCGTGCCATTGATGAAGAGGGACATACATTAGATATTTGGTTGCGTAAGCAACGAGATAATCATTCAGCATATGCGTTTATTAAACGTCTCATTAAACAATTTGGTAAACCTCa                              <  1:148091/135‑1 (MQ=1)                             gtcccAGTGATGCAGAGGGACATACATTAGATATTTGGTTGCGTAAGCAACGAGATAATCATTCAGCATATGCGTTTATCTAACGTCTCATTAAACAATTTGGTAAACCTCAAAAGGTAATTACAGATCAGGCACCTTCa  <  2:91/137‑1 (MQ=0)                                |                                                                                                                                         ATAAAAGGAAAATGGAGCTATTTATATCGTGCCATTGATGCAGAGGGACATACATTAGATATTTGGTTGCGTAAGCAACGAGATAATCATTCAGCATATGCGTTTATCAAACGTCTCATTAAACAATTTGGTAAACCTCAAAAGGTAATTACAGATCAGGCACCTTCA  >  CP000731/12750‑12917

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑