New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	512620 =	35 (1.060)	23 (1.010) +TTATCTTGTCCATTTTATTTTTTAACCAAAATTTGATTAA	19/180	NT	48.8%	intergenic (+688/‑6075)	recR/speA_2	Recombination protein RecR/Arginine decarboxylase
	?	USA300TCH1516_ALE	1998278 =	NA (NA)					intergenic (‑6/+3329)	USA300TCH1516_01882/USA300TCH1516_01883	tRNA‑Val/tRNA‑Ala

AGGGCGTTCAGTACAGATGACAAAGGTGTAATTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACTATAAGTTACAAACATTATTTAGT  >  USA300TCH1516_ALE/512480‑512757                                                                                                                                             |                                                                                                                                           aGGGCGTTCAGTACAGATGACAAAGGTGTAATTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTAAACTTAAGAAATAACTTGAATTACTCCCGAAAATTAATTTTa                                                                                                                                            >  2:159030/1‑141 (MQ=255)  gggCGTTCAGTACAGATGACAAAGGTGTAATTTTCACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTaa                                                                                                                                           <  2:20529/141‑1 (MQ=255)   cacacctgttcccatgccgaacacagaagttaagctccttagcgtcgatggtagtcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaattgacaagataaaaa                                                                                                                                          <  1:313426‑M1/3‑1 (MQ=255)   cacacctgttcccatgccgaacacagaagttaagctccttagcgtcgatggtagtcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaaaa                                                                                                                                          <  2:367719‑M1/3‑1 (MQ=255)      acctgttcccatgccgaacacagaagttaagctccttagcgtcgctggtagtcgcacttacgttccgctagagtagaacgttgcaaggaagttttttaatcaaattttggttaaacaataaaatgggcaaggtaaAAAAAg                                                                                                                                       <  2:87939‑M1/6‑1 (MQ=255)      acctgttcccatgccgaacacagaagttaagctccttagcgtcgatggtagtcgaacttacgttccgctagagtagaacgttgccaggcggttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAg                                                                                                                                       <  1:69522‑M1/6‑1 (MQ=255)           ttcccatgccgaacacagaagttaagctccttagcgtcgatggtagtcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGGTAtt                                                                                                                                  <  1:225923‑M1/11‑1 (MQ=255)           gTACAGATGACAAAGGTGTAATTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTAtt                                                                                                                                  >  1:106778/1‑141 (MQ=255)           gTACAGATGACAAAGGTGTAATTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTAtt                                                                                                                                  >  2:14440/1‑141 (MQ=255)           gTACAGATGACAAAGGTGTAATTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTAtt                                                                                                                                  >  1:194595/1‑141 (MQ=255)            tACAGATGACAAAGGTGTAATTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAATTATTg                                                                                                                                 >  2:393817/1‑141 (MQ=255)                          cagaagttaagctccttagcgtcgaggggattcgaacttacgatttatcactgcataacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAatgttgat                                                                                                                   >  1:188087‑M1/116‑138 (MQ=255)                             aaattaagctccttagcgacaatggtagtcaaacttacgttccgctagagcagaacgttgccaggcagttttataaacaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATaaa                                                                                                                >  2:393462‑M1/113‑141 (MQ=255)                               aTTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAAt                                                                                                              >  1:101211/1‑141 (MQ=255)                               aTTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAAt                                                                                                              >  2:339281/1‑141 (MQ=255)                               aTTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAAt                                                                                                              >  2:55384/1‑141 (MQ=255)                                        cttagcgtcgatggtagtcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTAtaatta                                                                                                     <  1:146724‑M1/40‑1 (MQ=255)                                         ttagcgtcgatggtagtcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaatataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTAtaattaa                                                                                                    >  1:55724‑M1/101‑141 (MQ=255)                                            gcgtcgatggtagtcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTc                                                                                                 <  1:178679‑M1/44‑1 (MQ=255)                                                 cAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTc                                                                                            >  1:170968/1‑141 (MQ=255)                                                   gTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCg‑g                                                                                         <  2:371319/141‑1 (MQ=255)                                                    tttGAAAGCCTGTATAGTATTTATTTGTTCAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑Gt                                                                                        <  1:295305/141‑1 (MQ=255)                                                     gtagtcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAACATGTATAATTAATTCTTGTCG‑GTa                                                                                       <  1:226840‑M1/53‑1 (MQ=255)                                                     gtagtcgaacttacgttccgatagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATCAAATGTATAATTAATTCTTGTCG‑GTa                                                                                       <  1:241224‑M1/53‑1 (MQ=255)                                                     aagAAACCCTGTATATTATTTATTTGTGGAGGCAAAGAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTCCATACAACCGTAATAAAATGTATAATTAATCCTTGTTG‑GTa                                                                                       >  2:180452/3‑141 (MQ=255)                                                       attcgaacttacgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACGTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAg                                                                                     >  2:87972‑M1/87‑141 (MQ=255)                                                        ggcgaacttacgttccgctagagtagaacgttgccatgcagttttttaatcaaatttttgttaaaaaataaaatggacaagataaAAAAAGTTATTGACGTAAATGTTGATAAAATGTATGATTATTTCTTGTCG‑GTAAGa                                                                                    >  2:14844‑M1/86‑141 (MQ=255)                                                        aaaGCATGTACAGTATTCATTTGCTGAGGCAAACAAAACAACTCAACTTAAGAAATAAATTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGa                                                                                    <  1:27522/141‑1 (MQ=255)                                                         aaGCCTGGATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAAAGTTACTAGAAGTTTAAATTAATTCTTGTCG‑GAAAGaa                                                                                   >  2:180308/1‑141 (MQ=255)                                                          cgaactttcgttcctctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggaaaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGaaa                                                                                  >  2:177295‑M1/84‑141 (MQ=255)                                                              tGTATAGTATTTATTTGTTGAGGCCCACACAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAATTATTGACTTAAATATCATTAAAATGTGTAATTAATACTTGTAG‑ATAAAAAAAAta                                                                              >  2:357316/1‑140 (MQ=255)                                                                tataGTATTTATTTGACGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGaa                                                                            >  1:199503/1‑141 (MQ=255)                                                                 acgttccgctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaACAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAAc                                                                           <  1:268819‑M1/65‑1 (MQ=255)                                                                         tatttGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGaaaa                                                                   <  1:335990/141‑1 (MQ=255)                                                                         ctagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGaaaa                                                                   >  1:22170‑M1/69‑141 (MQ=255)                                                                          tagagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAAc                                                                  >  2:173111‑M1/68‑141 (MQ=255)                                                                          atttGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAAc                                                                  <  1:396517/141‑1 (MQ=255)                                                                           agagtagaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTATTGTCG‑GTAAGAAAAATGAACATTGAAAACt                                                                 <  2:39134‑M1/75‑1 (MQ=255)                                                                           agagtagaacgttgccaagcagttttttaaacaaattttgtttaaaaaataaaacggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACt                                                                 >  2:59247‑M1/67‑141 (MQ=255)                                                                           agagtagaaccttcccaggaagtattttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTAGTCG‑ATAAGAAAAATGAAAATTGAAAACt                                                                 >  2:36574‑M1/67‑141 (MQ=255)                                                                            ttgttgAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTACCGAAAATTAATTTTAAAAAGTTATTGACTTAACTGTTAATAAAATGTATAATTCATTCTTGTCG‑GTAAGAAAAATGAACATTGacaccta                                                                >  1:171080/1‑135 (MQ=255)                                                                             tgttgAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTGATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGa                                                               >  1:240100/1‑141 (MQ=255)                                                                                agaacgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATg                                                            <  1:259509‑M1/80‑1 (MQ=255)                                                                                  aGGCAAACAAAACAACTCAAATTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGAc                                                          >  1:242803/1‑141 (MQ=255)                                                                                   ggCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACa                                                         <  1:55660/141‑1 (MQ=255)                                                                                   agCAAAAAAAACACAGCAACCTAAGAAATAACTTGAATTAATAACGAAAATTAATTTTAAAAAGTTATTGACTTAACTGTTAATAAAATGTATAAATAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACa                                                         <  1:18365/140‑1 (MQ=255)                                                                                   acgttgccaggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACa                                                         <  1:362693‑M1/83‑1 (MQ=255)                                                                                       aacaaaacaaCTCAACTTAAGAAATAACTTGAATTACTAACGAAAATAAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAAATAATACTGGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAatat                                                     >  2:236260/1‑141 (MQ=255)                                                                                       aacaaaacaaCTAAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTAAAAAAGTTATTGACATAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAatat                                                     <  1:379398/141‑1 (MQ=255)                                                                                          caggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTc                                                  <  1:336196‑M1/90‑1 (MQ=255)                                                                                          aaaacaaCTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTTTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACACTATGTc                                                  >  2:304754/1‑141 (MQ=255)                                                                                           aggcagttttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCa                                                 >  1:336075‑M1/51‑141 (MQ=255)                                                                                           aaacaaCTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCa                                                 >  2:104387/1‑141 (MQ=255)                                                                                             acaacTCTACGTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAAc                                               <  2:275467/141‑1 (MQ=255)                                                                                                   ttttaatcaaattttggttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAAt                                         >  1:6710‑M1/43‑141 (MQ=255)                                                                                                    tttaatcaaattttgggtaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAACTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAAtt                                        >  2:208051‑M1/42‑141 (MQ=255)                                                                                                     actTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTc                                       >  2:336159/1‑141 (MQ=255)                                                                                                      ctTAAGCAATAACTTGAATTACTAACGAAGATCAATTTTGAAAAGTTATTGACGTAAATGTTAATAAAATGTATAATAAATTCTTGTCGAGGAACAAGAA‑GAACATCGAAAACTGAATGGCAATATGAACAAGTTAATTcc                                      >  2:187427/1‑141 (MQ=255)                                                                                                        tAAGAAATAACTAGAATCACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCaa                                    <  1:42772/141‑1 (MQ=255)                                                                                                          aGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCaaaa                                  >  2:39061/1‑141 (MQ=255)                                                                                                           aaattttggtaaaaaaaaaaaagggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCaaaaa                                 >  2:313426‑M1/35‑141 (MQ=255)                                                                                                            aattttggttaaaaaataaaatggaaaagataaAAAAAGTTATTGACTTAAATGTTGGTAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATACCaaaaaa                                >  2:125444‑M1/34‑141 (MQ=255)                                                                                                             aaTAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTACATATTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGGAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAAc                               >  1:132897/1‑141 (MQ=255)                                                                                                                   ttGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACt                         >  1:339612/1‑141 (MQ=255)                                                                                                                    ttaaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAAGGTAACta                        <  2:61712‑M1/116‑1 (MQ=255)                                                                                                                     taaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACtat                       >  1:365954‑M1/25‑141 (MQ=255)                                                                                                                      aaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACtata                      >  1:366736‑M1/24‑141 (MQ=255)                                                                                                                      aaaaaataaaatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACtata                      >  1:33317‑M1/24‑141 (MQ=255)                                                                                                                       aTTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATGAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAAAGATAAAAAAAAAAAACGTAACTATaa                     <  2:170968/141‑1 (MQ=38)                                                                                                                            taaaatgtacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACAGTGAAAACTGAATGACAATATGTCAACGTTAATTACAAAAAACTGAACTATAAGTTAc                >  2:86418‑M1/18‑141 (MQ=255)                                                                                                                             aaCGAAAATTAATTGTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACTATAAGTTACa               <  1:32619/141‑1 (MQ=255)                                                                                                                               aatggacaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGCCAACTGAGTGACAATATGTCAACGTTAATTCCAAAAAACGTAACTATAAGTTACaaa             <  1:91714‑M1/127‑1 (MQ=255)                                                                                                                                atggacaagataaAAAAAGTTATTGACTTCAATGTTGATAAAATGTATAATTAATTCTGGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAAGATGTCAAGGTTAATTCCAAAAAACGTAAATAAAAGTTACAAAc            <  2:9460‑M1/128‑1 (MQ=255)                                                                                                                                    acaagataaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACTATAAGTTACAAACatta        >  2:24370‑M1/10‑141 (MQ=255)                                                                                                                                        gatcaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACTATAAGTTACAAACATTATTTa    <  2:131630‑M1/136‑1 (MQ=255)                                                                                                                                          taaAAAAAGTTATTGACTTAAATGTTGATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACTATAAGTTACAAACATTATTTAGt  >  2:178679‑M1/4‑141 (MQ=255)                                                                                                                                             |                                                                                                                                           AGGGCGTTCAGTACAGATGACAAAGGTGTAATTTTTACTGTTGTTAAGCAGTTTGAAAGCCTGTATAGTATTTATTTGTTGAGGCAAACAAAACAACTCAACTTAAGAAATAACTTGAATTACTAACGAAAATTAATTTTAAAAAGTTATTGACTTAAATGTTAATAAAATGTATAATTAATTCTTGTCG‑GTAAGAAAAATGAACATTGAAAACTGAATGACAATATGTCAACGTTAATTCCAAAAAACGTAACTATAAGTTACAAACATTATTTAGT  >  USA300TCH1516_ALE/512480‑512757

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.