New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 800928	83 (0.960)	8 (0.100)	5/282	6.6	11.0%	intergenic (+62/‑289)	hisC_1/USA300HOU_RS03915	Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase
	?	USA300TCH1516_ALE	801948 =	51 (0.620)					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.

ATTTCCAACTGGTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/800779‑800928 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccccaacATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCC  >  USA300TCH1516_ALE/801948‑802095                                                                                                                                                                                                                                                                                                            ATTTCCAACTGGTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAA                                                                                                                                                       >  1:769056/1‑149      CAACTGGTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCACCATGTATTTCTTCGTCCAAAACCAACtcgc                                                                                                                                                  >  1:436603/1‑145                     TTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCT                                                                                                                                   <  1:752823/149‑1                            TGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAA                                                                                                                            <  1:283231/149‑1                                                                       AACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCTAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCCTGCATTCATATTT                                                                                 >  1:180475/1‑149                                                                                                  AGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATG                                                      <  1:327393/149‑1                                                                                                  AGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATG                                                      <  1:536763/149‑1                                                                                                                                  ATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATAAATCATTAGTC                      >  1:815635/1‑149                                                                                                                                     gttggggCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTT                   >  1:493352/8‑149                                                                                                                                     gttggggCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGACTGTAACTCATGCATTCATATTTTTAAGTCAACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCCTTAGTCGTT                   >  2:54390/8‑149                                                                                                                                                      CATAAAGAAATACTGTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACCCATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCC  <  1:309773/149‑1                                                                                                                                                                                                                                                                                                            ATTTCCAACTGGTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/800779‑800928 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccccaacATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATCATTTCCGTCC  >  USA300TCH1516_ALE/801948‑802095

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ 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.