New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? USA300TCH1516_ALE = 557240NA (NA)3 (0.050) 3/250 NT NA intergenic (+298/‑1471) USA300TCH1516_00504/USA300TCH1516_00505 tRNA‑Ala/tRNA‑Ile
?USA300TCH1516_ALE = 557277 NA (NA)intergenic (+335/‑1434) USA300TCH1516_00504/USA300TCH1516_00505 tRNA‑Ala/tRNA‑Ile

CGGCGTGCCTAATACATGCAAGTCGAGCGAACGGACGAGAAGCTTGCTTCTCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTCACTTATAGATGGATCCGCGCTGCATTAGCTAGTTGGTAAGGT  >  USA300TCH1516_ALE/557104‑557332
                                                                                                                                        |                                                                                            
cgacgggCCGAATACATTCACGTCGAGCGAACGGACGAGAAGCTTGCTTCTCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGat                                                                                           <  1:39282/134‑1 (MQ=1)
                    aggcGAGCGGACGGGCGGAGAGCGTGCGTGTCTGATGTTAGCGGCGGACGGGTGAGGAACACGTGGATAACCTACCTATAAGACTGGGATAACGTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGt                                                                       <  2:84814/137‑1 (MQ=1)
                     ggcgggCGAACGGACGAGAAGCTTGCTTCTCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGtt                                                                      <  1:510938/135‑1 (MQ=1)
                                           tggcctctcGGATGTTCGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGc                                                <  1:582708/135‑1 (MQ=0)
                                               ttttctGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTc                                            <  1:574678/137‑1 (MQ=1)
                                                                                         acttacctcTAAGACACGGCTAACTACGGGAAACCTGAGCTAATACCGGATAATATTTTTAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTAACTTATAGATGGATCCGCGCTGCATTAGCTAGTTggtaaggt  <  2:227030/137‑1 (MQ=1)
                                                                                                                                        |                                                                                            
CGGCGTGCCTAATACATGCAAGTCGAGCGAACGGACGAGAAGCTTGCTTCTCTGATGTTAGCGGCGGACGGGTGAGTAACACGTGGATAACCTACCTATAAGACTGGGATAACTTCGGGAAACCGGAGCTAATACCGGATAATATTTTGAACCGCATGGTTCAAAAGTGAAAGACGGTCTTGCTGTCACTTATAGATGGATCCGCGCTGCATTAGCTAGTTGGTAAGGT  >  USA300TCH1516_ALE/557104‑557332

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.