New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 1873423	53 (0.800)	4 (0.070)	3/240	8.6	8.4%	intergenic (‑99/+651)	USA300HOU_1742/USA300HOU_1743	M20 family peptidase/hypothetical protein
	?	CP000730	= 1873461	40 (0.670)					intergenic (‑137/+613)	USA300HOU_1742/USA300HOU_1743	M20 family peptidase/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TTTAAGTCATTAATGATTTGATCTTCGTATTGTTGAACTTTTTCTTTCCACATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1873272‑1873423 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaaaaggaacaaaGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTTAACTTATAGAAAAAAGGAAGTCGATTTCGAA  <  CP000730/1873461‑1873324                                                                                                                                                                                                                                                                                                    TTTAAGTCATTAATGATTTGATCTTCGTATTGTTGAACTTTTTCTTTCCACATTCGAAATCGACTTCCTTTTTTTTTTTTGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAA                                                                                                                                                       >  2:117442/1‑141           TAATGATTTGATCTTCGTATTGTTGAACTTTTTCTTTCCACATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAA                                                                                                                                             <  1:307617/141‑1                                                CCACATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATC                                                                                                        <  2:191778/141‑1                                                    ATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTT                                                                                                    <  1:539644/141‑1                                                                 TTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTAT                                                                                       <  2:356491/141‑1                                                                 TTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTAT                                                                                       <  2:356428/141‑1                                                                                                       AAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAA                                                                                                                                                >  1:279025/1‑46                                                                                                       AAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAA                                                                                                                                                <  2:279025/46‑1                                                                                                                                            AAAAAGGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTTAACTTATAGAAAAAAGGAAGT            <  1:326535/141‑1                                                                                                                                            AAAAAGGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTAAAAATAAAAAAAAAAGGAAGT            <  2:602694/141‑1                                                                                                                                             AAAAGGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTTAACTTATAGAAAAAAGGAAGTC           >  1:526452/1‑141                                                                                                                                                 GGAACAAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTTAACTTATAGAAAAAAGGAAGTCGATT       <  2:742782/141‑1                                                                                                                                                  GAACAAAGCAGCTATTTATGAATTGTGACATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTTAACTTATAGAAAAAAGGAAGTCGATTg      >  2:78463/1‑140                                                                                                                                                      AAAGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTTAACTTATAGAAAAAAGGAAGTCGATTTCGAA  >  1:125331/1‑141                                                                                                                                                                                                                                                                                                    TTTAAGTCATTAATGATTTGATCTTCGTATTGTTGAACTTTTTCTTTCCACATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1873272‑1873423 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaaaaggaacaaaGCAGCTATTTATGATTTGTGTCATATCAATAGCATCGTTTTGTTCCTTTTTATTATTTTCTGACATCTTATTGTAGTTTTTATATCTTTTCATGTAAAATAGAATTTAACTTATAGAAAAAAGGAAGTCGATTTCGAA  <  CP000730/1873461‑1873324

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