New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	1575673 =	107 (0.860)	7 (0.060)	5/248	NT	6.4%	coding (1844/6201 nt)	USA300HOU_RS07705	Glycyl‑glycine endopeptidase ALE‑1
	?	USA300TCH1516_ALE	1575710 =	102 (0.850)					coding (1807/6201 nt)	USA300HOU_RS07705	Glycyl‑glycine endopeptidase ALE‑1

TTTTAGCCTTGATTGAAGCGGGACCAGATAAAATTAATAGCTATAGTAAATCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTTTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/1575817‑1575673 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tttgaGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAAATCCACTTGCTGCTTCAGTACCAACTATTGT  >  USA300TCH1516_ALE/1575710‑1575848                                                                                                                                                                                                                                                                                              TTTTAGCCTTGATTGAAGCGGGACCAGATAAAATTAATAGCTATAGTAAATCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTT                                                                                                                                                 <  2:639847/141‑1  TTTAGCCTTGATTGAAGCGGGACCAGATAAAATTAATAGCTATAGTAAATCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTT                                                                                                                                                >  2:801720/1‑141   TTAGCCTTGATTGAAGCGGGACCAGATAAAATTAATAGCTATAGTAAATCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTTT                                                                                                                                               <  1:34352/141‑1   TTAGCCTTGATTGAAGCGGGACCAGATAAAATTAATAGCTATAGTAAATCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTTT                                                                                                                                               <  1:857633/141‑1    TAGCCTTGATTGAAGCGGGACCAGATAAAATTAATAGCTATAGTAAATCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTTTG                                                                                                                                              <  1:552465/141‑1     AGCCTTGATTGAAGCGGGACCAGATAAAATAAATAGCTATAGTAACTCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTTTGA                                                                                                                                             <  2:590845/141‑1                                                                                                          ATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTTTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAG                                        >  1:465208/1‑141                                                                                                                 AGGCGCTCTGGAACAATTAGGTGGCGCTTTTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAA                                 >  2:668891/1‑141                                                                                                                 AGGCGCTCTGGAACAATTAGGTGGCGCTTTTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTAC                                                                              <  1:122625/96‑1                                                                                                                 AGGCGCTCTGGAACAATTAGGTGGCGCTTTTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTAC                                                                              >  2:122625/1‑96                                                                                                                   GCGCTCTGGAACAATTAGGTGGCGCTTTTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGTCATTGGAATTCTTTAAGGAGTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCCAGGCTAAAAAT                               >  2:154874/1‑141                                                                                                                         TGGAACAATTAGGTGGCGCTTTTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAAATCCACTT                         >  1:1064118/1‑141                                                                                                                         TGGAACAATTAGGTGGCGCTTTTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAAATCCACTT                         >  1:1064285/1‑141                                                                                                                                              TTGAGATTATCTTTCATCAACTCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAAATCCACTTGCTGCTTCAGTACCAACTATT    >  2:483365/1‑141                                                                                                                                              TTGAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAAATCCACTTGCTGCTTCAGTACCAACTATT    >  1:924918/1‑141                                                                                                                                                GAGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAAATCCACTTGCTGCTTCAGTACCAACTATTGT  <  2:931579/141‑1                                                                                                                                                                                                                                                                                              TTTTAGCCTTGATTGAAGCGGGACCAGATAAAATTAATAGCTATAGTAAATCCTTAAAGAATTCCAATGGCGAAAGTAAAAAAGCAGCAGATTTGATGAAAGATAATCTCAAAGGCGCTCTGGAACAATTAGGTGGCGCTTTTGA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/1575817‑1575673 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tttgaGATTATCTTTCATCAAATCTGCTGCTTTTTTACTTTCGCCATTGGAATTCTTTAAGGATTTACTATAGCTATTAATTTTATCTGGTCCCGCTTCAATCAAGGCTAAAAATCCACTTGCTGCTTCAGTACCAACTATTGT  >  USA300TCH1516_ALE/1575710‑1575848

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