New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 800928	15 (0.600)	3 (0.130)	3/266	3.0	15.7%	intergenic (+62/‑289)	hisC_1/USA300HOU_RS03915	Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase
	?	USA300TCH1516_ALE	801948 =	18 (0.760)					intergenic (+189/+435)	USA300HOU_RS03915/USA300HOU_RS03920	Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAACTTTGTAGAGCAT  >  USA300TCH1516_ALE/800790‑801066                                                                                                                                           |                                                                                                                                           gtgtTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGTAGTTTTATCAAACTTTAACTACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTTGCAAAATTTATTTCGTCGTCCCACCCCAACtt                                                                                                                                          <  2:252419/141‑1 (MQ=255)        aaTTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCTTCGTCACAACCCAACTTGCAtaga                                                                                                                                   >  1:167422/1‑138 (MQ=255)                    ttttAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGAAAATATTGATACTATCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAAAAATTg                                                                                                                       >  2:173406/1‑141 (MQ=37)                                                            aaCTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCGAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGt                                                                               <  1:210539/141‑1 (MQ=255)                                                                       cGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGTATCCAATTTCTCTTTGTAGAAGGCCCCCCCGCCAGATTGACTAGAAtt                                                                    <  2:205824/141‑1 (MQ=17)                                                                            aGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGaaaa                                                               >  1:166343/1‑141 (MQ=255)                                                                            aGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGaaaa                                                               <  1:186723/141‑1 (MQ=255)                                                                             gTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGaaaaa                                                              <  1:241751/141‑1 (MQ=255)                                                                             aaaaGTGGGGAGTGGGACAGAAATGTTACTTTCGCAAATTTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGaaaaa                                                              <  2:169351/139‑1 (MQ=255)                                                                                                          tttCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGGTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGt                                 >  1:195607/1‑141 (MQ=38)                                                                                                                       atttCGTCGTCCCACCCTAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGTCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCaa                    <  2:205565/141‑1 (MQ=17)                                                                                                                            gtcgtcACACCCGAACTTGCATTGTCTGTAGAAATTGGGAATCAAATTTCTCTTTGTTAGGGTCCCGTCGGCAATGTTGAGCAGAATCGAAAAAAGCTTGTTATAAACGCATTTGCGTTCAGTCAACTACTGCCAATATaa               <  2:286598/141‑1 (MQ=11)                                                                                                                                tcCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAACttt           >  1:234799/1‑141 (MQ=35)                                                                                                                                tcCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTCGGGGACGCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTAGTGCCAATATAACgtt           >  1:109704/1‑141 (MQ=11)                                                                                                                                         aaCTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAACTTTGTAGAGCAt  >  1:200082/1‑141 (MQ=34)                                                                                                                                           |                                                                                                                                           GTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAACTTTGTAGAGCAT  >  USA300TCH1516_ALE/800790‑801066

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.