New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 2284708	48 (1.200)	10 (0.260)	5/296	NT	17.3%	noncoding (77/199 nt)	RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site	RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site
	?	CP009273	= 2284743	50 (1.300)					noncoding (112/199 nt)	RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site	RIP160 (repetitive extragenic palindromic) element; contains 4 REP sequences and 1 IHF site

CTTCAGCGTGCTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/2284428‑2284708 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggcctacAAAATTGTGTAAATTCAATAAATTGA  <  CP009273/2284743‑2284718                                                                                                                                                                                                                                                                                                                     CTTCAGCGTGCTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAG                                  >  1:275981/1‑275                                                                                                                                                 CCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGG                                 <  2:652589/132‑1                                                                                                                                                                                       AACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAA       >  2:411058/1‑120                                                                                                                                                                                           CGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAAATTG   <  1:411065/120‑1                                                                                                                                                                                                                               CGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAAA      >  2:291331/1‑81                                                                                                                                                                                                                               CGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAA       >  2:531813/1‑80                                                                                                                                                                                                                               CGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTA                             >  1:646968/1‑58                                                                                                                                                                                                                               CGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTGATCAGGCCTACAAAATTGTGTAAATTCAATAAA      >  1:706688/1‑81                                                                                                                                                                                                                                   CTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAAATTGA  <  1:291336/81‑1                                                                                                                                                                                                                                   CTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAAATTG   <  1:531822/80‑1                                                                                                                                                                                                                                            ATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAAA      >  2:188055/1‑68                                                                                                                                                                                                                                            ATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACA                           <  2:297444/47‑1                                                                                                                                                                                                                                                CAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTACAAAATTGTGTAAATTCAATAAATTGA  <  1:188057/68‑1                                                                                                                                                                                                                                                               CTGATGCGCTACGCTTATCAGGCCTACAAAAGCGTGCAAATTCAATAca      >  1:53182/1‑47                                                                                                                                                                                                                                                                                                                     CTTCAGCGTGCTGACGGAGCGCGAGCTGGATGTTCTGCACGAGCTGGCACAGGGGCTGTCAAATAAACAGATTGCCTCGGTGTTGAATATTTCCGAGCAGACAGTAAAAGTACATATTCGCAATCTGCTGCGTAAACTCAATGTCCGCTCACGCGTGGCGGCCACCATTCTGTTCCTGCAACAACGCGGGGCACAATAAAAATAGCCCGATGGATTTATCATCGGGCTGAGATTTATGACAAACGCAAAACTGCCTGATGCGCTACGCTTATCAGGCCTAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/2284428‑2284708 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggcctacAAAATTGTGTAAATTCAATAAATTGA  <  CP009273/2284743‑2284718

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ 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.