New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AM260479	342083 =	5 (0.180)	4 (0.160)	4/200	2.0	40.7%	coding (214/1548 nt)	amtB	ammonium transporter
	?	AM260479	342103 =	7 (0.270)					coding (234/1548 nt)	amtB	ammonium transporter

AGGCCGCCGTAGAACAGCGCCAGGCCGGGCAGCGTCATCAGGATCACGAAGGCGGTCGAGACCAGCAGCCAGGCGGTGTCGCCCTTGTTGGGCACCGGTGCGGCCGGCGCGGCGGCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AM260479/342201‑342083 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggccgcACCGGTGCCCAACAAGGGCGACACCGCCTGGCTGCTGGTCTCGACCGCCTTCGTGATCCTGATGACGCTGCCCGGCCTGGCGCTGTTCTACGGCGGCCTGG  >  AM260479/342103‑342203                                                                                                                                                                                                                              AGGCCGCCGTAGAACAGCGCCAGGCCGGGCAGCGTCATCAGGATCACGAAGGCGGTCGAGACCAGCAGCCAGGCGGTGTCGCCCTTGTTGGGCACCGGTGCGGCCGGCGCGGCGGCCGCACCGGTGCCCAAC                                                                                          >  2:688011/1‑132                                            TCACGAAGGCGGTCGAGACCAGCAGCCAGGCGGTGTCGCCCTTGTTGGGCACCGGTGCGGCCGGCGCGGCGGCCGCACCGGTGCCCAACAAGGGCGACACCGCCTGGCTGCTGGTCTCGACCGCCTTCGTGATC                                             <  1:688011/134‑1                                                   GGCGGTCGAGACCAGCAGCCAGGCGGTGTCGCCCTTGTTGGGCACCGGTGCGGCCGGCGCGGCGGCCGCACCGGTGCCCAACAAGGGCGACACC                                                                              <  1:70417/94‑1                                                   GGCGGTCGAGACCAGCAGCCAGGCGGTGTCGCCCTTGTTGGGCACCGGTGCGGCCGGCGCGGCGGCCGCACCGGTGCCCAACAAGGGCGACACC                                                                              >  2:70417/1‑94                                                                                                                  GGCCGCACCGGTGCCCAACAAGGGCGACACCGCCTGGCTGCTGGTCTCGACCGCCTTCGTGATCCTGATGACGCTGCCCGGCCTGGCGCTGTTCTACGGCGGCCTGG  <  1:754834/107‑1                                                                                                                  GGCCGCACCGGTGCCCAACAAGGGCGACACCGCCTGGCTGCTGGTCTCGACCGCCTTCGTGATCCTGATGACGCTGCCCGGCCTGGCGCTGTTCTACGGCGGCCTGG  >  2:754834/1‑107                                                                                                                                                                                                                              AGGCCGCCGTAGAACAGCGCCAGGCCGGGCAGCGTCATCAGGATCACGAAGGCGGTCGAGACCAGCAGCCAGGCGGTGTCGCCCTTGTTGGGCACCGGTGCGGCCGGCGCGGCGGCCGC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AM260479/342201‑342083 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggccgcACCGGTGCCCAACAAGGGCGACACCGCCTGGCTGCTGGTCTCGACCGCCTTCGTGATCCTGATGACGCTGCCCGGCCTGGCGCTGTTCTACGGCGGCCTGG  >  AM260479/342103‑342203

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ 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.