New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	729254 =	47 (1.020)	3 (0.070)	3/236	NT	6.8%	intergenic (+55/‑96)	USA300HOU_RS03535/aes	hypothetical protein/Acetyl esterase
	?	USA300TCH1516_ALE	729295 =	40 (0.950)					intergenic (+96/‑55)	USA300HOU_RS03535/aes	hypothetical protein/Acetyl esterase

TCAAACGTAAAAATGCGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTAGCATTTCATCTGAAACA  >  USA300TCH1516_ALE/729162‑729432                                                                                                                                      |                                                                                                                                          tCAAACGTAAAAATGCGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTAtattta                                                                                                                                    >  1:692819/1‑141 (MQ=255)  cAAACGTAAAAATGCGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTAtatttat                                                                                                                                   <  1:286323/141‑1 (MQ=255)   gcagttatcatcgtccatttattatctttattcattacatcgtacctctctatttgttagacgctcatattaatagactgaataaatataAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTAtatttatt                                                                                                                                  >  2:144276‑M1/91‑141 (MQ=255)       gTAAAAATGCGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAGACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGt                                                                                                                              >  1:595921/1‑141 (MQ=255)            aaTGCGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTAtt                                                                                                                         <  2:227597/141‑1 (MQ=255)            aaTGCGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTAtt                                                                                                                         >  2:148721/1‑141 (MQ=255)                cGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAata                                                                                                                     <  1:464917/141‑1 (MQ=255)                  gATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATg                                                                                                                   <  1:27826/141‑1 (MQ=255)                  gATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATg                                                                                                                   >  1:275644/1‑141 (MQ=255)                   aTAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATGAATATGa                                                                                                                  <  1:623286/141‑1 (MQ=255)                    tAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAg                                                                                                                 <  1:340460/141‑1 (MQ=255)                          aCATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTa                                                                                                           <  1:376020/141‑1 (MQ=255)                            ctttattcattacatcgtacctctctatttgttagacactcatattaatagactgaataaatataaaaagcaattcgcccgataagagtagagacgaattgcttttTATATTTATTCAGTCTATTAATATGAGCGTCTAAc                                                                                                         >  1:568981‑M2/107‑141 (MQ=255)                            atatTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAAc                                                                                                         <  1:164932/141‑1 (MQ=255)                            atatTGCGTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAAc                                                                                                         <  1:593741/141‑1 (MQ=255)                                tGCTTAATCTCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTCACAGCAAATCGTCTCTACTCTTCTCGGGCGCCTTGCATTTTATATTTCTCCAGTCTATTAATATGAGCGTCTAACAAAt                                                                                                     >  1:549180/1‑141 (MQ=255)                                        atCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGt                                                                                             <  2:95147/141‑1 (MQ=255)                                           atatGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACg                                                                                          >  2:177343/1‑141 (MQ=255)                                                aGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTa                                                                                     <  2:10298/141‑1 (MQ=255)                                                 gggATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTaa                                                                                    >  1:602445/1‑141 (MQ=255)                                                  ggATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAAt                                                                                   <  2:332849/141‑1 (MQ=255)                                                  ggATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGCACGATGTAAt                                                                                   >  1:339486/1‑141 (MQ=255)                                                    atatCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGa                                                                                 >  1:73580/1‑141 (MQ=255)                                                     tatCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGaa                                                                                >  1:53200/1‑141 (MQ=255)                                                          gttagacgctcatattaatagactgaataaatataAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGTGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAg                                                                           >  1:568981‑M1/36‑141 (MQ=255)                                                               tttACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATCCCGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGataat                                                                      <  1:214298/141‑1 (MQ=255)                                                                ttACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGataata                                                                     >  2:303225/1‑141 (MQ=255)                                                                  aCAATTGAATCACTTTGTTTTAACCTTAGAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATaaa                                                                   >  1:91252/1‑141 (MQ=255)                                                                           tCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACgatg                                                          <  1:139252/141‑1 (MQ=255)                                                                                ttGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAAc                                                     <  1:445751/141‑1 (MQ=255)                                                                                   ttttAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTgc                                                  <  1:41197/141‑1 (MQ=255)                                                                                   aataaatataaaaagcaattcgcccgataagagtagagacgaattgcttttTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTgc                                                  >  2:144276‑M2/52‑141 (MQ=255)                                                                                    tttAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTgcg                                                 >  2:87580/1‑141 (MQ=255)                                                                                     ttAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTgcgc                                                <  2:191034/141‑1 (MQ=255)                                                                                      tAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCt                                               >  1:93156/1‑141 (MQ=255)                                                                                      tAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCt                                               <  1:539495/141‑1 (MQ=255)                                                                                        aCCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCttt                                             <  2:178276/141‑1 (MQ=255)                                                                                            tAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTtat                                         >  1:393280/1‑141 (MQ=255)                                                                                                   AATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTa                                  <  1:386311‑M1/141‑1 (MQ=255)                                                                                                    attcgcccgataagagtagagacgaattgcttttTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTaa                                 >  1:750174‑M2/35‑141 (MQ=255)                                                                                                    ATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTaa                                 >  2:176277‑M1/1‑141 (MQ=255)                                                                                                         tctcTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAgt                            >  1:732150/1‑141 (MQ=255)                                                                                                          ctctACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAgtg                           <  1:707031/141‑1 (MQ=255)                                                                                                          ctctACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAgtg                           <  1:185906/141‑1 (MQ=255)                                                                                                           tctACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAgtgt                          <  2:293387/141‑1 (MQ=255)                                                                                                                  ttATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTTTTATGAGCGTCTAACAAAGAGAGGGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTa                   <  1:509824/141‑1 (MQ=255)                                                                                                                  ttATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTa                   <  1:247166/141‑1 (MQ=255)                                                                                                                        ggCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTAGCAttt             <  2:141869/141‑1 (MQ=255)                                                                                                                            aattgcttttTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTAGCATTTCATc         <  2:222640‑M2/131‑1 (MQ=255)                                                                                                                                 cttttTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTAGCATTTCATCTGaaa    <  1:238115‑M2/136‑1 (MQ=255)                                                                                                                                  ttttTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTAGCATTTCATCTGAaac   >  1:407426‑M2/5‑141 (MQ=255)                                                                                                                                   tttTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTAGCATTTCATCTGAaaca  <  1:68977‑M2/138‑1 (MQ=255)                                                                                                                                      |                                                                                                                                          TCAAACGTAAAAATGCGGATAAAAAACATATTGCTTAATATCATATGAGGGATATCCGAAACTTTACAATTGAATCACTTTGTTTTAACCTTAAAAGCAATTCGTCTCTACTCTTATCGGGCGAATTGCTTTTTATATTTATTCAGTCTATTAATATGAGCGTCTAACAAATAGAGAGGTACGATGTAATGAATAAAGATAATAAATGGACGATGATAACTGCGCTTTTTATAACTGTAATCAGTGTATTGTTAGCATTTCATCTGAAACA  >  USA300TCH1516_ALE/729162‑729432

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