New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 234750	44 (1.290)	4 (0.130)	4/256	4.8	8.8%	intergenic (+48/+217)	USA300HOU_0211/USA300HOU_0212	hypothetical protein/oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein
	?	CP000730	= 234763	42 (1.320)					intergenic (+61/+204)	USA300HOU_0211/USA300HOU_0212	hypothetical protein/oligopeptide ABC superfamily ATP binding cassette transporter, ABC protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TGTGTTTTTTGATCAAAGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAATATAGTTAGTATGACAAAG  >  CP000730/234612‑234889                                                                                                                                           |                                                                                                                                            tgtgTTTTTTGATCAAAGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAACTATAAATAATCCCCCGccc                                                                                                                                           >  2:249455/1‑139 (MQ=255) tgtgTTTTTTGATCAAAGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCAc                                                                                                                                           >  1:73645/1‑141 (MQ=255)        tttGATCAAAGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACAt                                                                                                                                    <  2:181718/141‑1 (MQ=255)          tGATCAAAGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGccactatgtgaa                                                                                                                                  <  2:137626/141‑12 (MQ=255)             tCAAAGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTAAAAAAAAACAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTgg                                                                                                                               <  2:77886/141‑1 (MQ=255)               aaaGTTTATTTGAATATGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGAATAAGCTAAGTTGACACAAACAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCg                                                                                                                             <  1:165161/141‑1 (MQ=255)                 aGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCggg                                                                                                                           <  2:347017/141‑1 (MQ=255)                     tATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGAt                                                                                                                       <  1:336293/141‑1 (MQ=255)                       tttGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGAttt                                                                                                                     >  1:17281/1‑141 (MQ=255)                         tGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTAt                                                                                                                   >  1:332210/1‑141 (MQ=255)                             tgtgTTAATTATGAAAGAAAAAGAGTCAGTGACGCTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTg                                                                                                               <  2:283145/141‑1 (MQ=255)                              gtgtTAATTATGAAAGAAAAAGGGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTgg                                                                                                              <  1:309040/141‑1 (MQ=255)                               tgtTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGc                                                                                                             <  2:18430/141‑1 (MQ=255)                                   aaTTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTa                                                                                                         >  1:247906/1‑141 (MQ=255)                                     ttATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTaaa                                                                                                       <  2:150575/141‑1 (MQ=255)                                             gaaaAAGGGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCaa                                                                                               <  2:270896/141‑1 (MQ=255)                                              aaaaaGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCaaa                                                                                              >  2:163965/1‑141 (MQ=255)                                                    agTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATgg                                                                                        >  1:19908/1‑141 (MQ=255)                                                      tAACTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAATATCTGAATATGCTAATAGAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAATTGCCCAAAGTATgggg                                                                                      <  2:54163/141‑1 (MQ=255)                                                       aaGTGACGAAAAATATACAGCGACTAAGGTAAGTTGACACAGTCAAAAATGTGCATATTCTAATAAAATATAAAAAATCCCCCGCACTTCACATAGTGGCCGGGGAATTATTCTTTCGTTCAGATGCCCCCAGTATggggg                                                                                     >  2:42571/1‑141 (MQ=255)                                                            aCGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGAct                                                                                >  1:182388/1‑141 (MQ=255)                                                             cGTTCAATATACATTGACTAAACTAAGTTGACTCCCTAAACAATGTTAATCTTCTAATATTATATAAATAGTCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTTAAGTGCCCAAAGTCTGGGGGTGActc                                                                               <  2:47853/141‑1 (MQ=255)                                                              gTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGActct                                                                              <  1:218489/141‑1 (MQ=255)                                                              gTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGActct                                                                              <  1:372612/141‑1 (MQ=255)                                                                 aaaTATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTaa                                                                           <  1:372915/141‑1 (MQ=255)                                                                     ataCATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCa                                                                       >  2:363268/1‑141 (MQ=255)                                                                        cATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGGGACTCTTAAATCATgg                                                                    >  1:317358/1‑141 (MQ=255)                                                                         aTTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGTGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGc                                                                   <  2:87541/141‑1 (MQ=255)                                                                          ttGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCa                                                                  >  1:202030/1‑141 (MQ=255)                                                                                 agctaagTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCAcc                                                           >  1:7781/1‑141 (MQ=255)                                                                                  gctaagTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCt                                                          <  1:363268/141‑1 (MQ=255)                                                                                  actaagTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCt                                                          >  1:283632/2‑141 (MQ=255)                                                                                             acacTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGAGGTTCTATTCCGGCTTTAAAATGCCCAAAGGATGGGGGTGGCGCTTAAAGCATGTCAAAGCACCTAAAACTTGata                                               >  1:314233/1‑141 (MQ=255)                                                                                                         cTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTg                                                                                   >  1:114988/1‑93 (MQ=255)                                                                                                         cTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTg                                                                                   <  2:114988/93‑1 (MQ=255)                                                                                                         cTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGcc                                   <  1:182373/141‑1 (MQ=255)                                                                                                           gAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCt                                 <  1:159153/141‑1 (MQ=255)                                                                                                                         aaTATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAata                   <  2:19412/141‑1 (MQ=255)                                                                                                                         aaTATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAata                   <  2:212288/141‑1 (MQ=255)                                                                                                                          atatAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAatat                  <  2:355356/141‑1 (MQ=255)                                                                                                                                   atCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAATATAGTTAGTAt         >  1:355703/1‑141 (MQ=255)                                                                                                                                      ccccGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGcaca                      <  1:156552/125‑1 (MQ=255)                                                                                                                                      ccccGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGcaca                      >  2:156552/1‑125 (MQ=255)                                                                                                                                        ccGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAATATAGTTAGTATGACaa    <  1:338741/141‑1 (MQ=255)                                                                                                                                         cGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAATATAGTTAGTATGACaaa   >  1:310398/1‑141 (MQ=255)                                                                                                                                          gCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAATATAGTTAGTATGACAAAg  <  1:235926/141‑1 (MQ=255)                                                                                                                                           |                                                                                                                                            TGTGTTTTTTGATCAAAGTTTATTTGAATGTGTTAATTATGAAAGAAAAAGAGTAAGTGACGTTAAATATACATTGACTAAGCTAAGTTGACACACTCAAAAATCTGAATATTCTAATAAAATATAAATAATCCCCCGCACTTCACATAGTGGCGGGGGATTTATTCTGGCGTTAAAATGCCCAAAGTATGGGGGTGACTCTTAAATCATGGCAAAGCACCTAAAACTTGATATGGTGCCGAGCCCTAACTTAGCACAATATAGTTAGTATGACAAAG  >  CP000730/234612‑234889

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.