New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_pae_tpiA = 445450612 (0.770)3 (0.210) 3/230 1.7 20.6% intergenic (+12/+21) yjfF/fbp putative sugar ABC transporter permease/fructose‑1,6‑bisphosphatase I
?NC_000913_3_pae_tpiA = 4454510 12 (0.830)intergenic (+16/+17) yjfF/fbp putative sugar ABC transporter permease/fructose‑1,6‑bisphosphatase I

TGGCACGCTGAGTTCCTGGTGGACGAAAATCGCCATCGGTATTTTGTTGTTTATTTTTATAGCATTACAGCGTGGATTAACGGTGCTGTGGGAGAATCGTCAGAGTTCGCCAGTGACAAGAGTCAACATTGCGCAGCAATAAAAACGCCTCTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_tpiA/4454353‑4454506
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcctctccACACGGAGAGGCGTTTTTATTGCTGCGCAATGTTGACTCTTGTCACTGG  <  NC_000913_3_pae_tpiA/4454510‑4454462
                                                                                                                                                                                                           
TGGCACGCTGAGTTCCTGGTGGACGAAAATCGCCATCGGTATTTTGTTGTTTATTTTTATAGCATTACAGCGTGGATTAACGGTGCTGTGGGAGAATCGTCAGAGTTCGCCAGTGACAAGAGTCAACATTGCGCAGCAATAAAAACGCCT                                                       >  1:15473/1‑150
                                       TATTTTGTTGTTTATTTTTATAGCATTACAGCGTGGATTAACGGTGCTGTGGGAGAATCGTCAGAGTTCGCCAGTGACAAGAGTCAACATTGCGCAGCAATAAAAACGCCTCTCCACACGGAGAGGCGTTTTTATTGCTGCGCAATGTTG                <  1:164886/150‑1
                                                                                         GGGAGAATCGTCAGAGTTCGCCAGTGACAAGAGTCAACATTGCGCAGCAATAAAAACGCCTCTCCACACGGAGAGGCGTTTTTATTGCTGCGCAATGTTGACTCTTGTCACTGG  >  1:85569/1‑114
                                                                                         GGGAGAATCGTCAGAGTTCGCCAGTGACAAGAGTCAACATTGCGCAGCAATAAAAACGCCTCTCCACACGGAGAGGCGTTTTTATTGCTGCGCAATGTTGACTCTTGTCACTGG  <  2:85569/114‑1
                                                                                                                                                                                                           
TGGCACGCTGAGTTCCTGGTGGACGAAAATCGCCATCGGTATTTTGTTGTTTATTTTTATAGCATTACAGCGTGGATTAACGGTGCTGTGGGAGAATCGTCAGAGTTCGCCAGTGACAAGAGTCAACATTGCGCAGCAATAAAAACGCCTCTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_pae_tpiA/4454353‑4454506
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cgcctctccACACGGAGAGGCGTTTTTATTGCTGCGCAATGTTGACTCTTGTCACTGG  <  NC_000913_3_pae_tpiA/4454510‑4454462

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ 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.