New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	2080720 =	43 (1.160)	3 (0.090)	3/244	NT	6.8%	intergenic (‑188/+55)	USA300HOU_1938/USA300HOU_1939	hypothetical protein/hypothetical protein
	?	CP000730	2080773 =	41 (1.170)					intergenic (‑241/+2)	USA300HOU_1938/USA300HOU_1939	hypothetical protein/hypothetical protein

GGCAAGAAGGGATGATGACACTTATTACAGGTGGCTTACTAATTATTTTTCGACTTTGGTTAGAACTGAAATGGAAAAATAAAAAATGATCCTACACACATAAATAACCCCAAGTCTGCTGGTACCAGACTTGGGGT‑‑‑‑‑‑‑‑TGTGTAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2080863‑2080720 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgtgtagGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGTAAGCCACCTGTAATAAGTGTCATCATCCCTTCTTGCCACCACATCATTACACTACACCTCCGTTCGACTAAAGTATCATACTGAAG  >  CP000730/2080773‑2080912                                                                                                                                                                                                                                                                                                      GGCAAGAAGGGATGATGACACTTATTACAGGTGGCTTACTAATTATTTTTCGACTTTGGTTAGAACTGAAATGGAAAAATAAAAAATGATCCTACACACATAAATAACCCCAAGTCTGCTGGTACCAGACTTGGGGT‑‑‑‑‑‑‑‑TGTG                                                                                                                                                 >  2:82508/1‑141   CAAGAAGGGATGATGACACTTATTACAGGTGGCTTACTAATTATTTTTCGACTTTGGTTAGAACTGAAATGGAAAAATAAAAAATGATCCTACACACATAAATAACCCCAAGTCTGCTGGTACCAGACTTGGGGT‑‑‑‑‑‑‑‑TGTGTA                                                                                                                                               >  1:50031/1‑141                                                                                      ATGATCCTACACACATAAATAACCCCAAGTCTGCTGGTACCAGACTTGGGGT‑‑‑‑‑‑‑‑TGTGTAGGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGTAAGCCACCTGTAATAAGTGTCATCATCC                                                            >  2:64188/1‑141                                                                                         ATCCTACACACATAAATAACCCCAAGTCTGCTGGTACCAGACTTGGGGTTATTTATGTGTGTAGGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGGAAGCCACCTGTAATAAGTGTCAT                                                                 >  1:185945/1‑141                                                                                                       AATAACCCCAAGTCTGCTGGTACCAGACTTGGGGT‑‑‑‑‑‑‑‑TGTGTAGGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGTAAGCCACCTGTAATAAGTGTCATCATCCCTTCTTGCCACCACATC                                           <  1:64188/141‑1                                                                                                                                                     GTAGGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGTAAGCCACCTGTAATAAGTGTCATCATCCCTTCTTGCCACCACATCATTACACTACACCTCCGTTCGACTAAAGTATCATACTG     <  1:112743/141‑1                                                                                                                                                      aAGGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGTAAGCCACCTGTAATAAGTGTCATCATCCCTTCTTGCCACCACATCATTACACTACACCTCCGTTCGACTAAAGTATCATACTGA    <  2:433847/140‑1                                                                                                                                                        GGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGTAAGCCACCTGTAATAAGTGTCATCATCCCTTCTTGCCACCACATCATTACACTACACCTCCGTTCGACTAAAGTATCATACTGAAG  <  1:69568/141‑1                                                                                                                                                                                                                                                                                                      GGCAAGAAGGGATGATGACACTTATTACAGGTGGCTTACTAATTATTTTTCGACTTTGGTTAGAACTGAAATGGAAAAATAAAAAATGATCCTACACACATAAATAACCCCAAGTCTGCTGGTACCAGACTTGGGGT‑‑‑‑‑‑‑‑TGTGTAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/2080863‑2080720 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tgtgtagGATCATTTTTTATTTTTCCATTTCAGTTCTAACCAAAGTCGAAAAATAATTAGTAAGCCACCTGTAATAAGTGTCATCATCCCTTCTTGCCACCACATCATTACACTACACCTCCGTTCGACTAAAGTATCATACTGAAG  >  CP000730/2080773‑2080912

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.