New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	BA000036	1 =	0 (0.000)	105 (0.540)	88/496	4.9	100%	coding (1/1575 nt)	Cgl0001	ATPase involved in DNA replication initiation
	?	BA000036	= 3309401	0 (0.000)					intergenic (‑653/–)	Cgl3099/–	Ribosomal protein L34/–
Rejected: Coverage evenness skew score above cutoff.

‑‑‑GTGAGCCAGAACTCATCTTCTTTGCTCGAAACCTGGCGCCAAGTTGTTGCCGATCTCACAACTTTGAGCCAGCAAGCGGACAGTGGATTCGACCCATTGACGCCAACTCAACGTGCATATTTGAACCTGACGAAGCCGATTGCCATCGTCGATGGCTACGCCGTGCTGTCCACACCCAACGCGATGGCAAAAAATGTCATTGAAAACGATTTGGGCGATGCTTTGACCCGTGTGTTGTCGCTGCGCATG  >  BA000036/1‑249    |                                                                                                                                                                                                                                                         atagTGAGCCAGAACTCATCTTCTTTGCTCGAAACCTGGCGCCAAGTTGTTGCCGATCTCACAACTTTGAGCCAGCAAGCGGACAGTGGATTCGACCCATTGACGCCAACTCAACGTGCATATTTGAACCTGACGAAGCCGATTGCCATCGTCGATGGCTACGCCGTGCTGTCCACACCCAACGCGATGGCAAAAAATGTCATTGAAAACGATTTGGGCGATGCTTTGACCCGTGTGTTGTCGCTgcgc     >  2:8/4‑249 (MQ=255)    gTGAGCCAGAACTCATCTTCTTTGCTCGAAACCTGGCGCCAAGTTGTTGCCGATCTCACAACTTTGAGCCAGCAAGCGGACAGTGGATTCGACCCATTGACGCCAACTCAACGTGCATATTTGAACCTGACGAAGCCGATTGCCATCGTCGATGGCTACGCCGTGCTGTCCACACCCAACGCGATGGCAAAAAATGTCATTGAAAACGATTTGGGCGATGCTTTGACCCGTGTGTTGTCGCTGCGCATg  <  2:1289077/249‑1 (MQ=255)    |                                                                                                                                                                                                                                                         ‑‑‑GTGAGCCAGAACTCATCTTCTTTGCTCGAAACCTGGCGCCAAGTTGTTGCCGATCTCACAACTTTGAGCCAGCAAGCGGACAGTGGATTCGACCCATTGACGCCAACTCAACGTGCATATTTGAACCTGACGAAGCCGATTGCCATCGTCGATGGCTACGCCGTGCTGTCCACACCCAACGCGATGGCAAAAAATGTCATTGAAAACGATTTGGGCGATGCTTTGACCCGTGTGTTGTCGCTGCGCATG  >  BA000036/1‑249

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.