New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	1072168 =	94 (1.060)	5 (0.060)	3/256	NT	5.5%	intergenic (‑640/+165)	iraE/folD	possible chitinase/bifunctional methylenetetrahydrofolate dehydrogenase (NADP(+))/methenyltetrahydrofolate cyclohydrolase
	?	CP000730	2716787 =	79 (0.900)					intergenic (+95/+55)	ynzC/USA300HOU_2569	hypothetical protein/possible lactoylglutatione lyase

ATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGGGTGGGACGACGAAATAAATTTTACGAAAATATCATTTCTGTCCCACTCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/1072287‑1072168 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cACATTACGCTTCATCTCTGTATGGGCTTTTTATTTATTCTTTTGAGAATTTCATTTTAGCAGACCAAAAAATTAAAATGGTGTCCA  >  CP000730/2716787‑2716872                                                                                                                                                                                                                tTGGCAGTAGTTGACTGAATGAAAATGCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGGGTGGGACGACGAAATAAATTTTGCGAAAATATCATTTCTGTCCCACTCCCACATTAAACTTCATCTCTGTA                                                                   >  2:832080/2‑141          GTTGACTGAATGAAAATGCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGGGTGGGACGACGAAATAAATTTTGCGAAAATATCATTTCTGTCCCACTCCCACATTAAACTTCATCTCTGTATGGGCTTTT                                                          >  2:404864/1‑141                                               TCAATTCTAGTCAACCTTGCCGGGGTGGGACGACGAAATAAATTTTGCGAAAATATCATTTCTGTCCCACTCCCACATTAAACTTCATCTCTGTATGGGCTTTTTATTTATTCTTTTGAGAATTTCATTTTAGCAGACTAA                     >  2:11061/1‑141                                               TCAATTCTAGTCAACCTTGCCGGGGTGGGACGACGAAATAAATTTTGCGAAAATATCATTTCTGTCCCACTCCCACATTAAACTTCATCTCTGTATGGGCTTTTTATTTATTCTTTTGAGAATTTCATTTTAGCAGACTAA                     >  2:11069/1‑141                                                                  CCGGGGTGGGACGACGAAATAAATTTTGCGAAAATATCATTTCTGTCCCCCTCCCACATTAAACTTCATCTCTGTATGGGCTTTTTATTTATTCTTTTGAGAATTTCATTTTAGCAGACTAAAAAATTAAAATGGTGTACA  >  2:644345/1‑141                                                                                                                                                                                                                ATGGCAGTAGTTGACTGAACGAAAATTCGCTTGTAACAAGCTTTTTTCAATTCTAGTCAACCTTGCCGGGGTGGGACGACGAAATAAATTTTACGAAAATATCATTTCTGTCCCACTCCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/1072287‑1072168 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cACATTACGCTTCATCTCTGTATGGGCTTTTTATTTATTCTTTTGAGAATTTCATTTTAGCAGACCAAAAAATTAAAATGGTGTCCA  >  CP000730/2716787‑2716872

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.