New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE = 458414NA (NA)5 (0.030) 4/144 NT NA coding (1024/1557 nt) hsdM_1 Type I restriction enzyme EcoKI M protein
?USA300TCH1516_ALE = 458432 NA (NA)coding (1042/1557 nt) hsdM_1 Type I restriction enzyme EcoKI M protein

GCGCCTAAGTCTAAAGCAGACTTTGCCTTTATTCAACACATGGTACATTACCTAGACGATGAAGGTACCATGGCCGTTGTACTCCCACATGGTGTATTATTCCGAGGTGCTGCAGAAGGTGTCATTCG  >  USA300TCH1516_ALE/458369‑458496
                                                               |                                                                
gcaccTAAGTCTAAAGAAGACTTTGCCTTTATTCAACACATGGTACATTACCTAGACGGTGAAGGTACCATGGCCGTAGTATTCTCACATg                                       >  2:1115230/4‑91 (MQ=1)
                                     acgtGGTACATTACCTAGACGGTGAAGGTACCATGGCCGTTGTACTCCCACATGGTGTATTATTCCGAGGTGCTGCAGAAGGTGTCATtcg  <  2:1351437/88‑1 (MQ=0)
                                                               |                                                                
GCGCCTAAGTCTAAAGCAGACTTTGCCTTTATTCAACACATGGTACATTACCTAGACGATGAAGGTACCATGGCCGTTGTACTCCCACATGGTGTATTATTCCGAGGTGCTGCAGAAGGTGTCATTCG  >  USA300TCH1516_ALE/458369‑458496

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 22 ≤ 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.