New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1433877 =	NA (NA)	4 (0.030)	4/264	9.6	NA	intergenic (‑203/+114)	pinR/ynaE	Rac prophage; putative site‑specific recombinase/Rac prophage; uncharacterized protein YnaE
	?	NC_000913	1633417 =	NA (NA)					intergenic (+112/‑205)	ydfK/pinQ	Qin prophage; cold shock protein YdfK/Qin prophage; putative site‑specific recombinase
Rejected: Coverage evenness skew score above cutoff.

ACACGTTCGAAAATAAACGAATGCGTATGCAACCCCGTAATTTTGGTGAGACCCAAAATCGATTTTGTGAAAAATGGCTTTAACTCGGTTTGTTTTTCGAGTTCCGGGCGGACTCAAGGAAGAAGAATAGTGTTGCGTGTTATTTTAACCAGATTTCAAGTTGTTTGGTCGTGGAAAAGTGGAGCAAAATGTTGTTA  >  NC_000913/1433759‑1433955                                                                                                                       |                                                                               acccGTTCGAAAATAAACGAATGCGTATGCAACCCCGTAATTTTGGTGAGACCCAAAATCGATTTTGTGAAAAATGGCTTTAACTCGGTTTGTTTTTCGAGTTCCGGGCGGACTCAAGGACGAAGAATAGTGTTGCgtgt                                                           >  2:743582/4‑140 (MQ=1)                                          ttcggTGAGACCCAAAATCGATTTTGTGAAAAATGGCTTTAACTCGGTTTGTTTTTCGAGTTCCGGGCGGACTCAAGGAAGAAGAATAGTGTTGCGTGTTATTTTAACCAGATTTCAAGTTGTTTGGTCGTGGAAAAGTg                  <  1:855492/137‑1 (MQ=1)                                                          aaggagtttGAGAAAAATGGCTTTAACTCTGTTTGTTTTTCGAGTTCCGGGCGGAGTCAAGGAAGAAGGATAGTGTTACGGGTTATTTTAACCAGACATCAAGTTGTCTGGTCGTGGAAAAGTGGAGCAAAATTTTGTTa  <  2:834120/134‑1 (MQ=1)                                                                                                                       |                                                                               ACACGTTCGAAAATAAACGAATGCGTATGCAACCCCGTAATTTTGGTGAGACCCAAAATCGATTTTGTGAAAAATGGCTTTAACTCGGTTTGTTTTTCGAGTTCCGGGCGGACTCAAGGAAGAAGAATAGTGTTGCGTGTTATTTTAACCAGATTTCAAGTTGTTTGGTCGTGGAAAAGTGGAGCAAAATGTTGTTA  >  NC_000913/1433759‑1433955

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.