New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 800928	37 (1.040)	7 (0.210)	6/266	2.3	17.9%	intergenic (+62/‑289)	hisC_1/USA300HOU_RS03915	Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase
	?	USA300TCH1516_ALE	801948 =	29 (0.850)					intergenic (+189/+435)	USA300HOU_RS03915/USA300HOU_RS03920	Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase
Rejected: Frequency below/above cutoff threshold.

GTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/800792‑800928 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccccaacATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATC  >  USA300TCH1516_ALE/801948‑802085                                                                                                                                                                                                                                                                                     GTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAA                                                                                                                                        <  2:43648/141‑1                 GTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTT                                                                                                                        <  2:79151/141‑1                                                   TTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACT                                                                                      <  2:68288/141‑1                                                        CAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGC                                                                                 >  1:383367/1‑141                                                           ACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATT                                                                              <  1:257516/141‑1                                                           ACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATT                                                                              <  1:77952/141‑1                                                                                             AGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATG                                            >  1:275123/1‑141                                                                                                                                    CCCAACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTT     <  2:157487/141‑1                                                                                                                                       AACATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATC  <  1:151712/141‑1                                                                                                                                       AACATAAAGAAATACTTTTTCTTTAGAAATTAGTAGTACTTATTCTTGAGTGGAACACAGTCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATC  <  1:164581/141‑1                                                                                                                                                                                                                                                                                     GTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/800792‑800928 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ccccaacATAAAGAAATACTTTTTCTTTAGAAATTAGTATTTCTTATGCATGAGTGTAACTCATGCATTCATATTTTTAAGTACACATTAGCTGTGACTAATGATAAAGAATCGCTACATAATCAATCATTAGTCGTTCTTTATC  >  USA300TCH1516_ALE/801948‑802085

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