New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	37094 =	41 (1.290)	3 (0.100)	3/240	NT	6.8%	coding (21/231 nt)	USA300HOU_0028	hypothetical protein
	?	CP000730	37188 =	45 (1.530)					coding (115/231 nt)	USA300HOU_0028	hypothetical protein

GATTTTTTAAAGTTTACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACAGATAAGAGGTACGTT  >  CP000730/37051‑37326                                                                                                                                          |                                                                                                                                           gATTTTTTAAAGTTTACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTTTGTGTCTCCTTGCCTAGGGGTATGGGTTGAGTCATCCGTCTTGCGCACAGAGGATTTCGTCATGGTGCTGCACGTACAAAATCGGTTg                                                                                                                                         >  2:34212/1‑141 (MQ=255) gATTTTTTAAAGGTTACAGGGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTg                                                                                                                                         <  2:75146/141‑1 (MQ=255)      tttAAAGTTTACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAAtt                                                                                                                                    >  1:376366/1‑141 (MQ=255)      tttAAAGGTTACAGTGATATGCTTATTTTTTTATCTTACGAGTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAAtt                                                                                                                                    <  1:149055/141‑1 (MQ=255)       ttAAAAGTTACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAAttt                                                                                                                                   <  2:121708/141‑1 (MQ=255)           aGTTTACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCAt                                                                                                                               >  1:23970/1‑141 (MQ=255)             tttACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCAttt                                                                                                                             <  1:46420/141‑1 (MQ=255)             taagaatgcgtataaaaatgaaaattacaaccgattttgtaagtgctgacgcctgagggaatagtatgtgcgagagactaatggctcgagccatacccctaggcaagcatgcacgtacaaaatcgGTTGTAATTTTCAttt                                                                                                                             >  1:55175‑M2/126‑141 (MQ=255)             taagaatgcgtataaaaatgaaaattacaacCGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCAttt                                                                                                                             <  2:55175‑M1/110‑1 (MQ=255)               tACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCAttttt                                                                                                                           >  1:42534/1‑141 (MQ=255)                 cAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATTCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTtat                                                                                                                         <  1:369184/141‑1 (MQ=255)                  aGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTtata                                                                                                                        <  1:30/141‑1 (MQ=255)                    tGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACg                                                                                                                      <  1:106932/141‑1 (MQ=255)                    ggATATGCTTACTCTTCTAGCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACg                                                                                                                      <  1:148527/140‑1 (MQ=255)                     gATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGc                                                                                                                     >  1:341830/1‑141 (MQ=255)                     gATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGc                                                                                                                     <  1:79369/141‑1 (MQ=255)                       tatGCTTATTTTTTTATCTTACGATTTTGGACGTGCATGCCTGCCTCGGGGTATGGCTCGAGCCATTAGTCTCTCTCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCAt                                                                                                                   <  2:132671/141‑1 (MQ=255)                           cTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCtt                                                                                                               <  1:318880/141‑1 (MQ=255)                           cTTATTTTCTTATCTTACTATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCtt                                                                                                               <  1:155325/141‑1 (MQ=255)                            aaatgaaaattacaaccgattttgtaagtgctgacgcctgagggaatagtatgtgcgagagactaatggctcgagccatacccctaggcaagcatgcacgtacaaaatcgGTTGTAATTTTCATTTTTATACGCATTCTTa                                                                                                              <  2:55175‑M2/31‑1 (MQ=255)                            aaatgaaaattacaacCGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTa                                                                                                              >  1:55175‑M1/17‑141 (MQ=255)                              aTTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACt                                                                                                            <  2:70962/141‑1 (MQ=255)                               tttttttATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTg                                                                                                           <  1:166804/141‑1 (MQ=255)                                ttttttATCTTACGATTTTGTACGGGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTga                                                                                                          <  1:91896/141‑1 (MQ=255)                                   tttATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGAt                                                                                                       >  2:277866/1‑141 (MQ=255)                                   tttATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATAGGTTGTCATTTTCATTTTTATAAGCCTTCTTACTGAGAt                                                                                                       >  1:58792/1‑141 (MQ=255)                                      aTCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATtat                                                                                                    <  1:314009/141‑1 (MQ=255)                                       tCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATtata                                                                                                   >  1:236937/1‑141 (MQ=255)                                       tCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATtata                                                                                                   <  2:113774/141‑1 (MQ=255)                                                            tGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTCCCACTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTaaaa                                                                              <  1:308500/141‑1 (MQ=255)                                                                        ggTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCTGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTGATAAGAGGAATAGTAAAAGCAATTCTAAGt                                                                  >  2:290608/1‑141 (MQ=255)                                                                               cTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTg                                                           >  2:357339/1‑141 (MQ=255)                                                                               cTCGAGCCATTAGTCACTCGCACATGCTATTCCCTCAGGCGTCAGCACCTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTg                                                           >  1:198255/1‑141 (MQ=255)                                                                                  gAGCCATTAGTCTCTCGCACATACAATTAGCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAg                                                        >  2:181993/1‑141 (MQ=255)                                                                                  gAGCCATGAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGAAAAATTGCAg                                                        >  2:47142/1‑141 (MQ=255)                                                                                      cATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATaa                                                    >  2:212931/1‑141 (MQ=255)                                                                                        ttAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAaga                                                  >  2:125029/1‑141 (MQ=255)                                                                                         actaatggctcgagccatacccctaggcaagcatgcacgtacaaaatcgGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAagag                                                 >  2:63504‑M2/50‑141 (MQ=255)                                                                                              tctcGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTg                                            >  1:254965/1‑141 (MQ=255)                                                                                              tctcGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTg                                            >  1:283920/1‑141 (MQ=255)                                                                                                    acaTACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTaaaa                                      >  1:1302/1‑141 (MQ=255)                                                                                                       tACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCa                                   >  2:375692/1‑141 (MQ=255)                                                                                                       tACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCa                                   >  2:179404/1‑141 (MQ=255)                                                                                                               ccTCAGGCGTCAGAACTTACAAAATCTGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAg                           <  2:256487/141‑1 (MQ=255)                                                                                                                 tCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTa                         >  1:339405/1‑141 (MQ=255)                                                                                                                       gTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTa                   <  1:334716/141‑1 (MQ=255)                                                                                                                         cAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTACGTAAAATTGCAGATAAGAGGTTTCCTAAAAGCAGACCTCACTAAAATTAcg                 <  2:331355/141‑2 (MQ=38)                                                                                                                         cAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACa                 >  1:276895/1‑141 (MQ=255)                                                                                                                          aGCACTTACAAAATCGGTTGTAATTTTCATTTTTATGCGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACAg                <  2:236937/141‑1 (MQ=255)                                                                                                                          aGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACAg                >  1:86490/1‑141 (MQ=255)                                                                                                                          aGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACAg                >  1:36858/1‑141 (MQ=255)                                                                                                                          aGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTAAGTAAAATTACAg                >  2:333932/1‑141 (MQ=255)                                                                                                                           gCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCGGTTCTCAGTAAACTTAcggt               >  1:105780/1‑138 (MQ=255)                                                                                                                              cTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACAGATaa            <  2:198255/141‑1 (MQ=255)                                                                                                                                        cgGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACAGATAAGAGGTACGtt  <  2:270482‑M2/139‑1 (MQ=255)                                                                                                                                          |                                                                                                                                           GATTTTTTAAAGTTTACAGTGATATGCTTATTTTTTTATCTTACGATTTTGTACGTGCATGCTTGCCTAGGGGTATGGCTCGAGCCATTAGTCTCTCGCACATACTATTCCCTCAGGCGTCAGCACTTACAAAATCGGTTGTAATTTTCATTTTTATACGCATTCTTACTGAGATTATACTAATAAGAGGAATAGTAAAAGCAATTCTAAGTAAAATTGCAGATAAGAGGTTTGTTAAAAGCAGTTCTCAGTAAAATTACAGATAAGAGGTACGTT  >  CP000730/37051‑37326

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.