New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	3409687 =	23 (0.580)	3 (0.080)	3/308	NT	12.2%	intergenic (‑253/‑283)	PP_3022/PP_3024	Transcriptional regulator, AraC family/conserved protein of unknown function
	?	AE015451	3409701 =	22 (0.600)					intergenic (‑267/‑269)	PP_3022/PP_3024	Transcriptional regulator, AraC family/conserved protein of unknown function

GGCCGCGCCCACCACCTTGATGGCCAGGAATAGGTATTCGCTGGTATGCAACACCACTGCCAGGCCCATCGCTGCCAGGGCGATCATGCCGCAGAAGGCAAGGATACGGCCGGCGCCGGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/3409807‑3409687 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggccggcgccggccGTATCCTTGCCTTCTGCGGCATGATCGCCCTGGCAGCGATGGGCCTGGCAGTGGTGTTGCATACCAGCGAATACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGC  >  AE015451/3409701‑3409806                                                                                                                                                                                                                                     GGCCGCGCCCACCACCTTGATGGCCAGGAATAGGTATTCGCTGGAATGCAACACCACTGCCAGGCCCATCGCTGCCAGGGCGATCATGCCGCAGAAGGCAAGGAGACGGCCGGCGCC                                                                                                                >  2:194680/1‑117                                     TTCGCTGGTATGCAACACCACTGCCAGGCCCATCGCTGCCAGGGCGATCATGCCGCAGAAGGCAAGGATACGGCCGGCGCCGGCCGTATCCTTGCCTTCTGCGGCATGATCGCCCTGGCAGCGATGGGCCTGGCAGTG                                                       <  2:691530/138‑1                                                            CCAGGCCCATCGCTGCCAGGGCGATCATGCCGCAGAAGGCAAGGATACGGCCGG                                                                                                                    >  1:298480/1‑54                                                                 CCCATCGCTGCCAGGGCGATCATGCCGCAGAAGGCAAGGATACGGCCGGCGCCGGCCGTAGCGTTGCCTTCTGCGGCATGATCGCCCTGGCAGCGATGGGCCTGGCAGTGGTGTTGC                                                <  1:554967/117‑1                                                                       GCTGCCAGGGCGATCATGCCGCAGAAGGCAAGGATACGGCCGGCGCCGGCCGTATCCTTGCCTTCTGCGGCATGATCGCCCTGGCAGCGATGGGCCTGGCAGTGGTGTTGCATACCAGCGAATACCTATTCCTGGCCATCAAGGTGGGGGGCGCGGC  >  2:589950/1‑157                                                                                                                    CCGGCCGTATCCTTGCCTTCTGCGGCATGATCGCCCTGGCAGCGATGGGCCTGG                                                            >  2:298479/1‑54                                                                                                                                                                                                                                     GGCCGCGCCCACCACCTTGATGGCCAGGAATAGGTATTCGCTGGTATGCAACACCACTGCCAGGCCCATCGCTGCCAGGGCGATCATGCCGCAGAAGGCAAGGATACGGCCGGCGCCGGCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/3409807‑3409687 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggccggcgccggccGTATCCTTGCCTTCTGCGGCATGATCGCCCTGGCAGCGATGGGCCTGGCAGTGGTGTTGCATACCAGCGAATACCTATTCCTGGCCATCAAGGTGGTGGGCGCGGC  >  AE015451/3409701‑3409806

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ 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.