New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	= 2306157	48 (1.230)	4 (0.120)	4/244	4.9	9.1%	coding (78/108 nt)	USA300HOU_2165	hypothetical protein
	?	CP000730	= 2306167	38 (1.110)					coding (68/108 nt)	USA300HOU_2165	hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GCTCAACGTTTGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGATGTGCCATCAAAGAAATAATTGG  >  CP000730/2306028‑2306301                                                                                                                                             |                                                                                                                                       gCTCAACGTTTGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTc                                                                                                                                       >  1:299395/1‑141 (MQ=255)   tCAACGTTTGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCat                                                                                                                                     >  1:44487/1‑141 (MQ=255)    cAACGTTTGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCatg                                                                                                                                    <  2:357796/141‑1 (MQ=255)     aaCGTTTGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCatga                                                                                                                                   >  1:353681/1‑141 (MQ=255)      aCGTTTGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCatgaa                                                                                                                                  >  1:63891/1‑141 (MQ=255)         tttGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCatgaatga                                                                                                                               <  1:264803/141‑1 (MQ=255)           tGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGAtt                                                                                                                             <  2:61673/141‑1 (MQ=255)             gTAAAACGATTCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGAtttt                                                                                                                           <  2:358583/141‑1 (MQ=255)             gTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTATAAAAAAAATCATTCATGGTGAGGGCTTCATGAATGAttt                                                                                                                            >  1:438305/1‑141 (MQ=255)                        cgcgTTATTATAGATACTGAAGACCACGAATACATTATTTATACTCAAAATGTGCAAAAAGTTTACAATGAATTAACTAAATAAAGTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGAtt                                                                                                                <  2:318946/141‑1 (MQ=255)                             tattatCGATACTGAAGACCACGAATACATTATTTATACGCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAaca                                                                                                           >  2:67243/1‑141 (MQ=255)                                   cGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAAAGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGc                                                                                                     >  2:263851/1‑141 (MQ=255)                                    gATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCa                                                                                                    <  2:164425/141‑1 (MQ=255)                                    gATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCa                                                                                                    <  2:260024/141‑1 (MQ=255)                                     aTACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCAt                                                                                                   <  1:432640/141‑1 (MQ=255)                                          gAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACa                                                                                              <  2:249884/141‑1 (MQ=255)                                             gACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAAt                                                                                           >  1:46887/1‑141 (MQ=255)                                                 aCGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAACTAAATCGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAGCACCCAGCATAAACAAATACaa                                                                                       >  2:91782/1‑141 (MQ=255)                                                 aCGAATACATTATTTATACTCAAAATGATCAAAAAGTTGACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACaa                                                                                       >  2:91783/1‑141 (MQ=255)                                                    aaTACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAg                                                                                    >  1:47152/1‑141 (MQ=255)                                                       aCATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGAc                                                                                 <  1:47764/141‑1 (MQ=255)                                                         attattTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACaa                                                                               >  1:16615/1‑141 (MQ=255)                                                                 taCTCAAAATGATCAAAAAGTTTACAAAGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTccc                                                                       <  1:263851/141‑1 (MQ=255)                                                                  aCTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCa                                                                      <  1:127550/141‑1 (MQ=255)                                                                    tCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCAAAAAAAAAAAAAAAAGGACAACTGTTCCCATa                                                                    <  2:170046/141‑1 (MQ=255)                                                                     cAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATaa                                                                   >  1:124692/1‑141 (MQ=255)                                                                       aaaTGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAAtt                                                                 >  1:305249/1‑141 (MQ=255)                                                                       aaaTGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAAtt                                                                 <  1:188775/141‑1 (MQ=255)                                                                         aTGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAAtttt                                                               <  2:145896/141‑1 (MQ=255)                                                                            aTCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAAc                                                            >  2:437562/1‑141 (MQ=255)                                                                             tCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACa                                                           >  1:335061/1‑141 (MQ=255)                                                                             tCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACa                                                           >  1:318021/1‑141 (MQ=255)                                                                                 aaaGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTg                                                       <  1:194460/141‑1 (MQ=255)                                                                                         cAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCttttt                                               <  1:23062/141‑1 (MQ=255)                                                                                             gAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCGTTTTcaca                                           >  2:360760/1‑141 (MQ=255)                                                                                                ttAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACatat                                        <  2:63891/141‑1 (MQ=255)                                                                                                  aaCTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACatatat                                      >  2:407484/1‑141 (MQ=255)                                                                                                   aCTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACGCCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATAtt                                     >  1:64507/1‑141 (MQ=255)                                                                                                            atTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACaaa                            >  2:352682/1‑141 (MQ=255)                                                                                                            atTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACaaa                            <  1:400146/141‑1 (MQ=255)                                                                                                                    aaaaaaaTCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGAtgtg                     >  2:408674/1‑141 (MQ=255)                                                                                                                    aaaaaaaTCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAAGTGATTCAACACCCAGCATAAACAAATACAAACGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGAtgtg                     <  2:315338/141‑1 (MQ=255)                                                                                                                      aaaaaTCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGATGTGcc                   <  1:289479/141‑1 (MQ=255)                                                                                                                           tcattcatGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGATGTGCCATCaa              <  2:409802/141‑1 (MQ=255)                                                                                                                            cattcatGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGATGTGCCATCaaa             <  2:335282/141‑1 (MQ=255)                                                                                                                                  tGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATATACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGATGTGCCATCAAAGAaata       >  1:173362/1‑141 (MQ=255)                                                                                                                                       aGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGATGTGCCATCAAAGAAATAATTgg  >  2:298692/1‑141 (MQ=255)                                                                                                                                             |                                                                                                                                       GCTCAACGTTTGGTAAAACGAATCGCGTTATTATCGATACTGAAGACCACGAATACATTATTTATACTCAAAATGATCAAAAAGTTTACAATGAATTAACTAAATAAATTGTAT‑AAAAAAATCATTCATGGTGAGGGCTTCATGAATGATTTTTTTAATTGATTCAACACCCAGCATAAACAAATACAAAAGGACAACTGTTCCCATAATTTTAACAGTTGTCCTTTTTCACATATATTTATAACAAAAGATGTGCCATCAAAGAAATAATTGG  >  CP000730/2306028‑2306301

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.