New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 1856676	26 (0.750)	5 (0.150)	5/254	4.1	16.7%	intergenic (‑361/+339)	aroA/USA300HOU_1728	bifunctional chorismate mutase/3‑deoxy‑7‑phosphoheptulonate synthase/hypothetical protein
	?	CP000730	1856683 =	25 (0.760)					intergenic (‑368/+332)	aroA/USA300HOU_1728	bifunctional chorismate mutase/3‑deoxy‑7‑phosphoheptulonate synthase/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TAATCAATTAAATAAGTGTCATTATTATAGCTTATTTTGAGTCAACATTACTGCTTTTAAGAAAAATTTTCGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTTGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1856531‑1856676 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctttgtATATTAATATAAATCTATAGTGAACATCACTCACCAACACATTCAGCTATATTTAAATTAGTGAACGTCATTGTACCTTCTAAAATTCATTGTTTATTTGATTATCGAATATTTTTCCATCTTCAGCTTAAAATGT  >  CP000730/1856683‑1856818                                                                                                                                                                                                                                                                                            TAATCAATTAAATAAGTGTCATTATTATAGCTTATTTTGAGTCAACATTACTGCTTTTAAGAAAAATTTTCGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACC                                                                                                                                               <  1:74820/141‑1   ATCAATTAAATAAGTGTCATTATTATAGCTTATTTTGAGTCAACATTACTGCTTTTAAGAAAAATTTTCGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTT                                                                                                                                             <  2:128045/141‑1    TCAATTAAATAAGTGTCATTATTATAGCTTATTTTGAGTCAACATTACTGCTTTTAAGAAAAATTTTCGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTT                                                                                                                                            <  1:31450/141‑1     CAATTAAATAAGTGTCATTATTATAGCTTATTTTGAGTCAACATTACTGCTTTTAAGAAAAATTTTCGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTTG                                                                                                                                           <  1:149898/141‑1                       TATTATAGCTTATTTTGAGTCAACATTACTGCTTTTAAGAAAAATTTTCGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTTGTATATTAATATAAATCTA                                                                                                                         <  1:359942/141‑1                                                                       CGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTTGTATATTAATATAAATCTATAGTGAACA                                                                                                                <  1:9342/102‑1                                                                       CGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTTGTATATTAATATAAATCTATAGTGAACA                                                                                                                >  2:9342/1‑102                                                                                                 AAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTTGTATATTAATATAAATCTATAGTGAACATCACTCACCAACATGAGCGGCTATATTTGAATTAGTGAACGTCATTGTACCTTCTAAGATTCATT                                               >  2:195905/1‑141                                                                                                                   CCTAACGCTTAATAAAAATTAACAACCTTTGTATATTAATATAAATCTATAGTGAACATCACTCACCAACATGAGCGGCTATATTTGAATTAGTGAACGTCATTGTACCTTCTAAGATTCATTGTTTATTTGATTATCGAA                             <  2:361121/141‑1                                                                                                                                             CTTTGTATATTAATATAAATCTATAGTGAACATCACTCACCAACACATTCAGCTATATTTAAATTAGTGAACGTCATTGTACCTTCTAAAATTCATTGTTTATTTGATTATCGAATATTTTTCCATCTTCAGCTTAAAATG   <  1:175298/141‑1                                                                                                                                              TTTGTATATTAATATAAATCTATAGTGAACATCACTCACCAACACATTCAGCTATATTTAAATTAGTGAACGTCATTGTACCTTCTAAAATTCATTGTTTATTTGATTATCGAATATTTTTCCATCTTCAGCTTAAAATGT  <  2:355955/141‑1                                                                                                                                                                                                                                                                                            TAATCAATTAAATAAGTGTCATTATTATAGCTTATTTTGAGTCAACATTACTGCTTTTAAGAAAAATTTTCGTTTCTATCTTCTATTATAAATCTAAAATTCTCATACATTCAACCTAACGCTTAATAAAAATTAACAACCTTTGT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000730/1856531‑1856676 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctttgtATATTAATATAAATCTATAGTGAACATCACTCACCAACACATTCAGCTATATTTAAATTAGTGAACGTCATTGTACCTTCTAAAATTCATTGTTTATTTGATTATCGAATATTTTTCCATCTTCAGCTTAAAATGT  >  CP000730/1856683‑1856818

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ 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.