New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 1873423	23 (1.060)	5 (0.260)	3/234	NT	19.0%	intergenic (‑99/+651)	USA300HOU_1742/USA300HOU_1743	M20 family peptidase/hypothetical protein
	?	CP000730	= 1873461	22 (1.120)					intergenic (‑137/+613)	USA300HOU_1742/USA300HOU_1743	M20 family peptidase/hypothetical protein

CATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATGCGCCCCGGGGCCCCAACAT  >  CP000730/1873322‑1873594                                                                                                                                            |                                                                                                                                      cATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCt                                                                                                                                      >  2:4379‑M2/1‑140 (MQ=255) atttcgAATTCGACTTCCTTTTTTTTATAAGTTAAATTTT‑TTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCtt                                                                                                                                     >  2:27797‑M2/3‑139 (MQ=255)            gACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCtttgttcctttt                                                                                                                           >  1:56250‑M2/1‑129 (MQ=255)                                ttAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAAt                                                                                                       <  1:7481/141‑1 (MQ=255)                                                        atatAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGata                                                                               <  2:87966/141‑1 (MQ=255)                                                        atatAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGata                                                                               <  1:264908/141‑1 (MQ=255)                                                           taAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATaa                                                                            >  1:1990/1‑141 (MQ=255)                                                           taAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATaa                                                                            >  1:190462/1‑141 (MQ=255)                                                                    cAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTa                                                                   >  2:84277/1‑141 (MQ=255)                                                                       tAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAAAGTACTa                                                                >  1:106979/1‑141 (MQ=255)                                                                                aGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCtttgttcctttttattattttctgacatcttattgtagtttttatatcttttcatgtaaaatagaatttaacttatagaa                                                       <  2:106516‑M2/141‑81 (MQ=255)                                                                                aGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCtttgttcctttttattattttctgacatcttattgtagtttttatatcttttcatgtaaaatagaatttaacttatagaa                                                       <  2:116747‑M2/141‑81 (MQ=255)                                                                                aGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACaa                                                       <  1:163583/141‑1 (MQ=255)                                                                                   aaaTAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAAttt                                                    >  1:197398/1‑141 (MQ=255)                                                                                             aaGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACa                                          <  2:85933/141‑1 (MQ=255)                                                                                              aGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCtttgttcctttttattattttctgacatcttattgtagtttttttttctttttttgtaaaatagaatctaacttatagtaaaaaggatgttgat                                         <  2:210105‑M2/141‑95 (MQ=255)                                                                                              aGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCtttgttcctttttattattttctgacatcttattgtagtttttatatcttttcatgtaaaatagaatttaacttatagaaaaaaggaagtcgat                                         <  2:64478‑M2/141‑95 (MQ=255)                                                                                              aGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAg                                         <  1:225411/141‑1 (MQ=255)                                                                                                     aaaCGATGCTATTGATATGACACAAATCATAAATAGCTGCtttgttcctttttattattttctgacatcttattgtagtttttatatcttttcatgtaaaatagaatttaacttatagaaaaaaggaagtcgatttcgaat                                  <  1:59576‑M2/141‑102 (MQ=255)                                                                                                        cGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACcg                               <  2:186857/141‑1 (MQ=255)                                                                                                         gATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACcga                              <  2:16827/141‑1 (MQ=255)                                                                                                         gATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACcga                              <  1:39962/141‑1 (MQ=255)                                                                                                         gATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACcga                              <  1:233562/141‑1 (MQ=255)                                                                                                            gCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACcgaacg                           <  1:23494/141‑1 (MQ=255)                                                                                                                  gATATGACACAAATCATAAATAGCCGCTTTGTTACTTTTTTAATTCATATATTCAAAATACACATATTCAAGAGCTCGAGATGTAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATg                     >  2:170333/1‑141 (MQ=255)                                                                                                                          acaAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATGCGCCCCgg             <  1:88444/141‑1 (MQ=255)                                                                                                                          acaAATCATAAATAGCTGCTTTGTTCCTTTTCTAATTTATATATTTACAACACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATGCGCCCCgg             <  2:181219/141‑1 (MQ=255)                                                                                                                           caAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATGCGCCCCggg            >  1:201076/1‑141 (MQ=255)                                                                                                                                 aTAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATGCGCCCCGGGGCCCCa      >  1:117930/1‑141 (MQ=255)                                                                                                                                     aTAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATGCGCCCCGGGGCCCCAACAt  <  2:100707/141‑1 (MQ=255)                                                                                                                                            |                                                                                                                                      CATTCGAAATCGACTTCCTTTTTTCTATAAGTTAAATTCTATTTTACATGAAAAGATATAAAAACTACAATAAGATGTCAGAAAATAATAAAAAGGAACAAAACGATGCTATTGATATGACACAAATCATAAATAGCTGCTTTGTTCCTTTTTTAATTTATATATTTAAAATACACATATTCAAGAGCTCGAGATATAAGTCAATGTACTAGGCACACAATTTAATATTGACAGTAATTAACCGAACGAAAATGCGCCCCGGGGCCCCAACAT  >  CP000730/1873322‑1873594

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.