New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_pae_pgi	1224228 =	16 (0.680)	4 (0.180)	4/264	2.6	23.0%	intergenic (+321/+51)	ycgI/minE	pseudogene/cell division topological specificity factor
	?	NC_000913_3_pae_pgi	1224254 =	12 (0.550)					intergenic (+347/+25)	ycgI/minE	pseudogene/cell division topological specificity factor

GTACAAATTGATCCTGAGATGGTAACCGTACAGCTTGAGCAAAAAGATGGCGATATTTCTATTCTTGAGCTGAACGTGACCTTACCGGAAGCAGAAGAGCTGAAATAAGCCCGCTGTAAAAGCGCATTTATCTTCAAGGCAGAGTTATCTCTGCCTTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/1224386‑1224228 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctctgccttgaAGATAAATGCGCTTTTACAGCGGGCTTATTTCAGCTCTTCTGCTTCCGGTAAGGTCACGTTCA  >  NC_000913_3_pae_pgi/1224254‑1224316                                                                                                                                                                                                                                GTACAAATTGATCCTGAGATGGTAACCGTACAGCTTGAGCAAAAAGATGGCGATATTTCTAATCTTGAGCTGAACGTGACCTTACCGGAAGCAGAAGAGCTGAAATAAGCCCGCTGTAAAAGCGCATTTATCATCAAGGCAGAGTTATC                                                                           >  2:271628/1‑149     AAATTGATCCTGAGATGGTAACCGTACAGCTTGAGCAAAAAGATGGCGATATTTATATTCTTGAGCTGAACGTGACCTTACCGGAAGCAGAAGAGCTGAAATAAGCCCGCTGTAAAAGCGCATTTATCTTCAAGGCAGGGTTATCTCTG                                                                       >  1:125150/1‑149                                                                                                              CCCGCTGTAAAAGCGCATTTATCTTCAAGGCAGAGTTATCTCTGCCTTGAAGATAAATGCGCTTTTACAGCGGGCTTATTTCAGCTCTTCTGCTTCCGGTAAGGTCACGTTCA  <  1:34109/113‑1                                                                                                              CCCGCTGTAAAAGCGCATTTATCTTCAAGGCAGAGTTATCTCTGCCTTGAAGATAAATGCGCTTTTACAGCGGGCTTATTTCAGCTCTTCTGCTTCCGGTAAGGTCACGTTCA  >  2:34109/1‑113                                                                                                                                                 TTATCTCTGCCTTGAAGATAAATGCGCTTTTACAGCGGGCTTATTTCAGCTCTTCTGCTTCCG                 <  1:170413/63‑1                                                                                                                                                 TTATCTCTGCCTTGAAGATAAATGCGCTTTTACAGCGGGCTTATTTCAGCTCTTCTGCTTCCG                 >  2:170413/1‑63                                                                                                                                                                                                                                GTACAAATTGATCCTGAGATGGTAACCGTACAGCTTGAGCAAAAAGATGGCGATATTTCTATTCTTGAGCTGAACGTGACCTTACCGGAAGCAGAAGAGCTGAAATAAGCCCGCTGTAAAAGCGCATTTATCTTCAAGGCAGAGTTATCTCTGCCTTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913_3_pae_pgi/1224386‑1224228 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctctgccttgaAGATAAATGCGCTTTTACAGCGGGCTTATTTCAGCTCTTCTGCTTCCGGTAAGGTCACGTTCA  >  NC_000913_3_pae_pgi/1224254‑1224316

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.