New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2525159 =	61 (0.940)	3 (0.050)	3/246	NT	5.3%	coding (270/732 nt)	nirR	transcriptional regulator NirR
	?	CP000730	2525195 =	49 (0.790)					coding (234/732 nt)	nirR	transcriptional regulator NirR

ATCTCAAGGATATACCGAATATCGTTCATGAAATGAAACGACGGTAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2525205‑2525159 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggtatATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGATGT  >  CP000730/2525195‑2525333                                                                                                                                                                                            ATCTCAAGGATATACCGAATATCGTTCATGAAATGAAACGACGGTATATCCTTGCGATAATGCATTGCACTAAAGAATATCAATGGTACAATATTAAAACAGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCT                                               >  2:286344/1‑141                 GAATATCGTTCATGAAATGAAACGACGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAA                                                                                          >  2:159193/1‑82                 GAATATCGTTCATGAAATGAAACGACGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAA                                                                                          <  1:159193/82‑1                                          CGGTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTG      >  1:370086/1‑141                                            GTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGAT    >  2:155134/1‑141                                            GTATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATCCTCACTTTCTAACAACGCAATATCATAGTGAT    >  2:744497/1‑141                                              ATATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGATGT  <  2:503852/141‑1                                                                                                                                                                                            ATCTCAAGGATATACCGAATATCGTTCATGAAATGAAACGACGGTAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2525205‑2525159 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cggtatATCCTTGAGATAATGCATTGCACTAAAGATTAGCAATGGTACAATTTTAAAATGGTCAACCCCACTTTGAATCAACGTCGTCATTACCGTCTCTAAATCCTGATGCTCACTTTCTAAAAACGCAATATCATAGTGATGT  >  CP000730/2525195‑2525333

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