New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_002947	4348540 =	NA (NA)	5 (0.060)	4/238	NT	NA	coding (140/1422 nt)	PP_3820	group II intron‑encoding maturase
	?	NC_002947	4392901 =	NA (NA)					coding (158/1422 nt)	PP_3868	group II intron‑encoding maturase

CCTTGTTGCTAACCACGCGTTGATACGCACGCCTGAGGTTGGCCGGTGCAAGCACCCGCTCCATCAGCGTGTCCGGCTCCGCGTTCGTCCACGTCACGGACGCCGTCGATACCTTTGCACTGTCAGGCGTCACCCTCGGCTTCTGGCCGGAGCTCGG  >  NC_002947/4392830‑4392986                                                                        |                                                                                      ccgtgttgCTTACCGCGCGTTGATACGCACGCCTGAGGTTGGCCGGTGCAAGCACCCGCTCCATCAGCGTGTCCGGCTCCGCGTTCGTCCACGTCACGGACGCCGTCGATACCTTTGCACTGTCAGGCGTCACCCTCGGCTTCTGGCCgg         <  2:782951/147‑1 (MQ=0)                                          gcgggTGCTTGCACCCGCTCCATCAGCGTGTCCGGCTCCGCGTTCGTCCACGTCACGGACGCCGTCGATACCTTTGCACTGTCAGGCGTCACCCTCGGCTTCTGGCCGGAGCTCgg  <  1:1030958/113‑1 (MQ=0)                                                                        |                                                                                      CCTTGTTGCTAACCACGCGTTGATACGCACGCCTGAGGTTGGCCGGTGCAAGCACCCGCTCCATCAGCGTGTCCGGCTCCGCGTTCGTCCACGTCACGGACGCCGTCGATACCTTTGCACTGTCAGGCGTCACCCTCGGCTTCTGGCCGGAGCTCGG  >  NC_002947/4392830‑4392986

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ 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.