New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	AP009048	4143468 =	46 (0.790)	3 (0.060)	3/90	NT	7.0%	intergenic (‑55/+71)	nirC/nirD	nitrite transporter/nitrite reductase, NAD(P)H‑binding, small subunit
	?	AP009048	4143500 =	39 (0.750)					intergenic (‑87/+39)	nirC/nirD	nitrite transporter/nitrite reductase, NAD(P)H‑binding, small subunit

ATGTTTTAACGGGAGGCGCAATGCCTCCCCTTTTTGCATGGTCCTGTAATAATCTTCGGTATATTGCAGGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AP009048/4143539‑4143468 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑caggacCATGCAAAAAGGGGAGGCATTGCGCCTCCCGTTAAAACATTAACCGCGCAGCTGCACCACGCCGTCT  >  AP009048/4143500‑4143566                                                                                                                                             ATGTTTTAACGGGAGGCGCAATGCCTCCCCTTTTTGCATGGTCCTGTAATAATCTTCGGTATATTGCAGGA                                                                      <  1:4999328/71‑1                                          TCCTGTAATAATCTTCGGTATATTGCAGGACCATGCAAAAAGGGGAGGCATTGC                                              <  1:4074359/54‑1                                            CTGTAATAATCTTCGGTATATTGCAGGACCATGCAAAAAGGGGAGGCATTGCGCCTCCCGTTAAAACATT                            <  1:1456221/70‑1                                             TGTAATAATCTTCGGTATATTGCAGGACCATGCAAAAAGGGGAGGCATTGC                                              >  1:5272938/1‑51                                                                    AGGACCATGCAAAAAGGGGAGGCATTGCGCCTCCCGTTAAAACATTAACCGCGCAGCTGCACCACGCCGTC   >  1:3967798/1‑71                                                                    AGGACCATGCAAAAAGGGGAGGCATTGCGCCTCCCGTTAAAACATTAACCGCGCAGCTGCAC            <  1:1631338/62‑1                                                                    AGGACCATGCAAAAAGGGGAGGCATTGCGCCTCCCGTTA                                   >  1:1176735/1‑39                                                                      GACCATGCAAAAAGGGGAGGCATTGCGCCTCCCGTTAAAACATTAACCGCGCAGCTGCACCACGCCGTCT  <  1:4846284/70‑1                                                                                                                                             ATGTTTTAACGGGAGGCGCAATGCCTCCCCTTTTTGCATGGTCCTGTAATAATCTTCGGTATATTGCAGGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  AP009048/4143539‑4143468 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑caggacCATGCAAAAAGGGGAGGCATTGCGCCTCCCGTTAAAACATTAACCGCGCAGCTGCACCACGCCGTCT  >  AP009048/4143500‑4143566

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.