New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AM260479	= 801625	16 (0.600)	4 (0.160)	4/192	1.9	21.8%	coding (2600/5826 nt)	pilL2	Type IV pilus protein histidine kinase/response regulator hybrid PilL
	?	AM260479	= 801686	14 (0.570)					coding (2661/5826 nt)	pilL2	Type IV pilus protein histidine kinase/response regulator hybrid PilL

GATGCGGCAACCTGGCACGACATCGCGCCGCTGGTGGCAGCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AM260479/801582‑801625 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcagccgcGCCGGGCAGTACTGGCAGTTCATCCGCGGCCTGCGCGGCGCCCGG  <  AM260479/801686‑801642                                                                                           GATGCGGCAACCTGGCACGACATCGCGCCGCTGGTGGCAGCCGCGCCGGGCAGTACTGGCAGTTCATCCGCGGCCTGC             >  1:1161129/1‑78 GATGCGGCAACCTGGCACGACATCGCGCCGCTGGTGGCAGCCGCGCCGGGCAGTACTGGCAGTTCATCCGCGGCCTGC             <  2:1161129/78‑1      GGCAACCTGGCACGACATCGCGCCGCTGGTGGCAGCCGCGCCGGGCAGTACTGGCAGTTCATCCGCGGCCTGCGCGGCGCCCGG  <  1:260031/84‑1      GGCAACCTGGCACGACATCGCGCCGCTGGTGGCAGCCGCGCCGGGCAGTACTGGCAGTTCATCCGCGGCCTGCGCGGCGCCCGG  >  2:260031/1‑84                                                                                           GATGCGGCAACCTGGCACGACATCGCGCCGCTGGTGGCAGCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  AM260479/801582‑801625 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcagccgcGCCGGGCAGTACTGGCAGTTCATCCGCGGCCTGCGCGGCGCCCGG  <  AM260479/801686‑801642

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ 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.