New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	1454018 =	96 (0.740)	8 (0.070)	5/270	8.6	8.1%	intergenic (‑97/+187)	odhA/arlS	2‑oxoglutarate dehydrogenase E1 component/Signal transduction histidine‑protein kinase ArlS
	?	USA300TCH1516_ALE	1454048 =	94 (0.790)					intergenic (‑127/+157)	odhA/arlS	2‑oxoglutarate dehydrogenase E1 component/Signal transduction histidine‑protein kinase ArlS
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GATCAATTTTTTAAGTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/1454174‑1454018 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gttgattcttctAGGTTTATAGATGTATTTTATTGTAAATTTTGGGAGTACAACAGAAATGATAAAGAACCACTGTTTATTTGTTTTATAGTTGTTCTTATACATTAGTCACAGCTAATGTGTACTTAAAAAATTGATCCTATGACTTTGATTGACGT  >  USA300TCH1516_ALE/1454048‑1454193                                                                                                                                                                                                                                                                                                                 GATCAATTTTTTAAGTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTT                                                                                                                                                             >  1:874608/1‑148  ATCAATTTTTTAAGTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAACTACATCTATAAACCTAGAAGAATCACCGCTTTTGTTc                                                                                                                                                            >  2:1243197/1‑147   TCAATTTTTTAAGTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGA                                                                                                                                                           >  1:510469/1‑148     AATTTTTTAAGTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATT                                                                                                                                                         <  1:147964/148‑1        TTTTTAAGTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTT                                                                                                                                                      <  1:1158403/148‑1        TTTTTAACTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTT                                                                                                                                                      <  2:7525/148‑1                                  AATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGT                                                                                                                            >  1:1082526/1‑148                                  AATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGT                                                                                                                            >  1:142200/1‑148                                                   ATAAAACAAATAAACAGTGGCTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGTAAATTTTGGGTGTACAA                                                                                                           >  1:997780/1‑148                                                                                       TTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGTAAATTTTGGGGGTACAACAGAAATGATAAAGAACCACTGTTTATTTGTTTTAT                                                                       <  2:997780/148‑1                                                                                                        ACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGTAAATTTTGGGAGTACAACAGAAATGATAAAGAACCACTGTTTATTTGTTTTATAGTTGTTCTTATACATT                                                      <  2:1082526/148‑1                                                                                                        ACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGTAAATTTTGGGAGTACAACAGAAATGATAAAGAACCACTGTTTATTTGTTTTATAGTTGTTCTTATACATT                                                      <  2:142200/148‑1                                                                                                                              CTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGTAAATTTTGGGAGTACAGCAGAAATGATAAAGAACCACTGTTTATTTGTTTTATAGTTGTTCTTATACATTAGTCACAGCTAATGTGTACTTg                                >  2:838872/1‑147                                                                                                                              CTAGAAGAATCAACGCTTTTGTTGATTCTTCTAGGTTTATAGATGTATTTTATTGTAAATTTTGGGAGTACAACAGAAATGATAAAGAACCACTGTTTATTTGTTTTATAGTTGTTCTTATACATTAGTCACAGCTAATGTGTACTTA                                >  1:654010/1‑148                                                                                                                                                            CTAGGTTTATAGATGTATTTTATTGTAAATTTTGGGAGCACAACAGAAATGATAAAGAACCTCTGTTTATTTGTTTTATAGTTGTTCTTATACATTAGTAACAGCTAATGTGTACTTAAGAAATTGATCCTATGACTTTGATTGATGT  >  2:861154/1‑148                                                                                                                                                            CTAGGTTTATAGATGTATTTTATTGTAAATTTTGCGCGTACAACAGAAATGATAAAGAACCACTGTTTCTTTGTTTTATAGTTGTTCTTATACATTAGTCATAGCTAATGTGTATTTATACACTTGAACATATACCTTTGCTTcgatc  >  2:1093064/1‑143                                                                                                                                                                                                                                                                                                                 GATCAATTTTTTAAGTACACATTAGCTGTGACTAATGTATAAGAACAACTATAAAACAAATAAACAGTGGTTCTTTATCATTTCTGTTGTACTCCCAAAATTTACAATAAAATACATCTATAAACCTAGAAGAATCAACGCTTTTGTTGATTCTTCT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/1454174‑1454018 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gttgattcttctAGGTTTATAGATGTATTTTATTGTAAATTTTGGGAGTACAACAGAAATGATAAAGAACCACTGTTTATTTGTTTTATAGTTGTTCTTATACATTAGTCACAGCTAATGTGTACTTAAAAAATTGATCCTATGACTTTGATTGACGT  >  USA300TCH1516_ALE/1454048‑1454193

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.