New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AE015451	2689525 =	36 (0.880)	3 (0.080)	3/316	NT	9.0%	coding (955/2268 nt)	PP_2356	putative Phytochrome family protein
	?	AE015451	2689657 =	27 (0.700)					coding (823/2268 nt)	PP_2356	putative Phytochrome family protein

AGCGTATCGCCCGTGCACCTGCAGTACATGCGCAACATGGGCACGCTGGCTTCGATGTCGCTGTCGATCGTGGTTGACGGCCAGCTGTGGGGGCTGATTTCCTGCCACCATCAACAGCCACGCCCGGTGGACCTGCGCACCCGCACGGCCTGCGAGCTGTTGGCCAGCGTGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/2689696‑2689525 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccagcgtgcCCATGTTGCGCATGTACTGCAGGTGCACGGGCGATACGCTACGCAGCGCAGCAAAACTCATGTCCAGCGGCTTGCCGGTGCGCGGGTTGGTAGCGGGCAGCAGTGGCGAGGGCTGATAGTTGGCATCTTCGATCACGCGGATACGGTTGACCCGGTACAGCTCGCGCGCCT  >  AE015451/2689657‑2689827                                                                                                                                                                                                                                                                                                                                                         AGCGTATCGCCCGGGCACCTGCAGTACATGCGCAACATGGGCACGCTGGCTTCGATGTCGCTGTCGATCGTGGTTGACGGCCAGCTGTGGGGGCTGATTTCCTGCCACCATCAACAGCCACGCCCGGTGGACCTGCGCACCCGCACGGCCTGCGAGCTGTTGGCCAGCGTGC                                                                                                                                                                             <  2:659769/172‑1                                            CGCTGGCTTCGATGTCGCTGTCGATCGTGGTTGACGGCCAGCTGTGGGGGCTGATTTCCTGCCACCATCAACAGCCACGCCCGGTGGACCTGCGCACCCGCACGGCCTGCGAGCTGTTGGCCAGCGTGC                                                                                                                                                                             <  2:754708/129‑1                                               TGGCTTCGATGTCGCTGTCGATCGTGCTTGACGGCCAGCTGTGGGGGCTGATTTCCTGCCACCATCAACAGCCACGCCCGGTGGACCTGCGCACCCGCACGGCCTGCGAGCTGTTGGCCAGCGTGCCCATGTTGCGCATGTACTGCAGGTG                                                                                                                                                    <  1:441101/151‑1                                                                                                  TTTCCTGCCACCATCAACAGCCACGCCCGGTGGACCTGCGCACCCGCACGGCCTGCGAGCTGTTGGCCAGCGTGCCCATGTTGCGCATGTACTGCAGGTGCACGGGCGATACGCTACGCAGCGCAGCAAAACTCATGTCCAGCGGCTTGCCGGTGCGCGGGTTGGTAGCGGGCAGCAGTGGCGAGGGCTGATAGTTGG                                                  >  2:259142/1‑198                                                                                                              ATCAACAGCCACGCCCGGTGGACCTGCGCACCCGCACGGCCTGCGAGCTGTTGGCCAGCGTGCCCATGTTGCGCATGTACTGCAGGTGCACGGGCGATACGCTACGCAGCGCAGCAAAACTCATGTCCAGCGGCTTGCCGGTGCGCGGGTTGGTAGCGGGCAGCAGTGGCGAGGGCTGATAGTTGGCATCTTCGATCACGCGGATACGGTTGACCCGGTACA              >  1:570508/1‑222                                                                                                                                                                      AGCGTGCCCATGTTGCGCATGTACTGCAGGTGCACGGGCGATACGCTACGCCGCGCAGCAAAACTCATGTCCAGCGGCTTGCCGGTGCGCGGGTTGGTAGCGGGCAGCAGTGGCGAGGGCTGATAGTTGGCATCTTCGATCACGCGGATACGGTTGACCCGGTACAGCTCGCG       >  2:47717/1‑173                                                                                                                                                                         GTGCCCATGTTGCGCATGTACTGCAGGTGCACGGGCGATACGCTACGCAGCGCAGCAAAACTCATGTCCAGCGGCTTGCCGGTGCGCGGGTTGGTAGCGGGCAGCAGTGGCGAGGGCTGATAGTTGGCATCTTCGATCACGCGGATACGGGTGACCCGGTACAGCTCGCGCGCCT  >  2:144679/1‑175                                                                                                                                                                         GTGCCCATGTTGCGCATGTACTGCAGGTGCACGGGCGATACGCTACGCAGCGCAGCAAAACTCATGTCCAGCGGCTTGCCGGTGC                                                                                            >  2:508039/1‑85                                                                                                                                                                                                                                                                                                                                                         AGCGTATCGCCCGTGCACCTGCAGTACATGCGCAACATGGGCACGCTGGCTTCGATGTCGCTGTCGATCGTGGTTGACGGCCAGCTGTGGGGGCTGATTTCCTGCCACCATCAACAGCCACGCCCGGTGGACCTGCGCACCCGCACGGCCTGCGAGCTGTTGGCCAGCGTGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AE015451/2689696‑2689525 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gccagcgtgcCCATGTTGCGCATGTACTGCAGGTGCACGGGCGATACGCTACGCAGCGCAGCAAAACTCATGTCCAGCGGCTTGCCGGTGCGCGGGTTGGTAGCGGGCAGCAGTGGCGAGGGCTGATAGTTGGCATCTTCGATCACGCGGATACGGTTGACCCGGTACAGCTCGCGCGCCT  >  AE015451/2689657‑2689827

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 34 ≤ 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.