New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	310940 =	14 (0.750)	11 (0.600) +TC	11/256	NT	33.2%	intergenic (+1/‑62)	eaeH/insE1	pseudogene, attaching and effacing protein homology;factor; Not classified/IS3 transposase A
	?	CP009273	831792 =	31 (1.650)					intergenic (+126/‑15)	ybiB/ybiC	putative family 3 glycosyltransferase/putative dehydrogenase

GTTGCCTTGCTGGCAGCGAACCGATTCCCGAATCGCTGAAAATCCAGATGGCTTGCTGCCTGGTGGCTACGGGTGAAGCGGCAACTATCAGCGACGGCCTGGCGCGCGTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATCCCAAGCTATGTACGCTCCTGGAGTCAGGGGCACCTGCAAATTAACCATCATGCCAAAACCGTTAAAGAGGCGGGGGCGGCGGTC  >  CP009273/831542‑832049                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                                  gTTGCCTTGCTGGCAGCGAACCGATTCCCGAATCGCTGCAAATCCAGATGGCTTGCTGCCTGGTGGCCACGGGTGAAGCGGCAACTATCAGCGACTGCCTGGCGCGCGTTAATCAGGCATTTTAATTATTTTCTCAGCCGGACGCGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTACCCACGCCCGGCGCGCAGCATAAACATACAACCAACACACAACATAAACCGGCTATAACCAGGGcaaagg                                                                                                                                                                                                                                           >  2:11412/1‑272 (MQ=255)                      cGATTCCCGAATCGCTGAAAATCCAGATGGCTTGCTGCCTGGTGGCTACGGGTGAAGCGGCAACTATCAGCGACGGCCTGGCGCGCGTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGa                                                                                                                                                                                                                      <  1:151539/275‑1 (MQ=255)                                            ccAGATGGCTTGCTGCGTGGTGGCTACTGGTGAAGTGGCAACTATCAGCGACGGCCTGGCGCGCGTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATTAAATTCCTGCATCTTTATTGACCTTCACACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTACCCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGc                                                                                                                                                                                                <  1:11412/275‑1 (MQ=255)                                                           cgtggtggCTACGGGTGAAGCGGCAACTATCAGCGACGGCCTGGCGCGCGTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCAGAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGAt                                                                                                                                                                                 <  1:46167/273‑1 (MQ=255)                                                                                   gcggcagtaacaccgatgcgttcagcaggcttcagggcttcactgcgaaattcaggcgaatgctgtttacggggttttttactggttgatactgtttttgtcatgtgagtcacctctgactgagagtttactcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGaa                                                                                                                                                         >  1:238369‑M2/169‑275 (MQ=255)                                                                                                ggCCTGGCGCGCGTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCt                                                                                                                                                                                                                                  >  1:119874/1‑189 (MQ=255)                                                                                                    tGGCGCGCGTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGa                                                                                                                                                                                                                              <  2:119870/189‑1 (MQ=255)                                                                                                           cgTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAATTAACCATg                                                                                                                                                                                                                                                  >  1:372385/1‑162 (MQ=255)                                                                                                               gcttcagggcttcactgcgaaattcaggcgaatgctgtttacggggttttttactggttgatactgtttttgtcatgtgagtcacctctgactgagagtttactcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGATGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCa                                                                                                                             <  1:58156‑M2/135‑1 (MQ=255)                                                                                                               aaTCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGaaa                                                                                                                                                                                                                                              <  2:372379/162‑1 (MQ=255)                                                                                                                           cactgcgaaattcaggcgaatgctgtttacggggttttttcctggttgatactgtttttgtcatgtgagtcacctctgactgagagtttactcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGCAAGTGGTCATCGCTTTGATGCTCAGACGc                                                                                                                                                                                                                   >  1:353070‑M2/129‑177 (MQ=255)                                                                                                                                       taGCCAGCTGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAgg                                                                                                                                                                      <  2:372594/209‑1 (MQ=255)                                                                                                                                       gaggcgcatgctgtttacgttgtnttttactggttgatactttttttctcatgtgagtcacctctgactgagagtttactcaattagccgcgtgtccactattgctgggtaagatcAAAGAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTcaca                                                                                                      <  2:238364‑M2/158‑1 (MQ=255)                                                                                                                                                 ctttttacggggttttttacttgttgatactgtttttgtcatgtgagtcacctctgactgaaagtttactcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCa                                                                                           <  1:5662‑M2/169‑1 (MQ=255)                                                                                                                                                   ccATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCATTGATGCTCAGACGCTGCACAGTATTATTCAGGCTGTATTTCGTCata                                                                                                                                                                                  >  2:174644/1‑184 (MQ=255)                                                                                                                                                       gTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATggg                                                                                                                                                                              <  1:174649/186‑1 (MQ=255)                                                                                                                                                             cGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCt                                                                                                                                                                                                                                  >  1:186809/1‑128 (MQ=255)                                                                                                                                                             cGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCAAAAACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAAAGAAATAAGTTGCCGATCATTTAATCCCGGCAAACCTGGCAGGGCATGAATACCAGGGTATTGGAAAGATGCCAAGcc                                                                               >  2:366628/1‑274 (MQ=255)                                                                                                                                                                 ttttACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGa                                                                                                                                                                                                                              <  2:186804/128‑1 (MQ=255)                                                                                                                                                                                    gAAATTTCTGCATCTTTATTGCCCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACCAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGNCGCTGCACAGGTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATCCCAAGCTATGTACGCTCCTGGAGTCAgggg                                                        <  1:366634/275‑1 (MQ=255)                                                                                                                                                                                           cTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTg                                                                                                                                                                                                                                           >  2:202572/1‑89 (MQ=255)                                                                                                                                                                                             gCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGAtt                                                                                                          >  2:362624/1‑216 (MQ=255)                                                                                                                                                                                               aTCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCa                                                                                                                                                                                                                                       <  1:202577/89‑1 (MQ=255)                                                                                                                                                                                                 cTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTcaca                                                                                                      <  1:362630/216‑1 (MQ=255)                                                                                                                                                                                                         aCCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGAtt                                                                                                          >  2:303090/1‑204 (MQ=255)                                                                                                                                                                                                             tCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTcaga                                                                                                      <  1:303096/204‑3 (MQ=255)                                                                                                                                                                                                              gagtttactcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTc                                                                                                                                                                                                    >  1:317631‑M2/46‑109 (MQ=255)                                                                                                                                                                                                              cccACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCt                                                                                                                                                                                               >  2:83/1‑114 (MQ=255)                                                                                                                                                                                                                 tttactcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTAtt                                                                                                                                                                                          >  2:46931‑M2/43‑116 (MQ=255)                                                                                                                                                                                                                  ttactcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGc                                                                                                                                                                                                <  2:317625‑M2/68‑1 (MQ=255)                                                                                                                                                                                                                  cGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTAt                                                                                                                                                                                           <  1:83/114‑1 (MQ=255)                                                                                                                                                                                                                     ctcacttagccgcgtgtccactattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGt                                                                                                                                                                                      <  1:46932‑M2/78‑1 (MQ=255)                                                                                                                                                                                                                            gcagcaTAAAAATACAACAAACACATAACATAAAc                                                                                                                                                                                                                                                                <  2:194317/35‑1 (MQ=255)                                                                                                                                                                                                                               gcaTAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATCCAACGCTa                                                                              >  2:82629/1‑210 (MQ=255)                                                                                                                                                                                                                                  tAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGc                                                                                                                                                                          >  2:240424/1‑115 (MQ=255)                                                                                                                                                                                                                                   aaaaaTACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATCCCAAGCTATGTa                                                                          <  1:82632/210‑1 (MQ=255)                                                                                                                                                                                                                                   aaaaaTACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGAGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATcc                                                                                     >  2:192162/1‑199 (MQ=255)                                                                                                                                                                                                                                      aaTACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAgg                                                                                                                                                                      <  1:240429/115‑1 (MQ=255)                                                                                                                                                                                                                                       aTACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATCCCAAg                                                                                 <  1:192167/199‑1 (MQ=255)                                                                                                                                                                                                                                          tattgctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGc                                                                                                                                                                                                                   >  2:76823‑M2/18‑66 (MQ=255)                                                                                                                                                                                                                                          caacaaACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGCTGCTCAGACGCTGCAAAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCTCGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATCCCAAGCTATGTACGCACCTTGAGTCAGGAGCAACTGCAAATTACACATCATGCCAAACCCGTCACAGAGGCGGGggcgcgcgc   >  2:52400/1‑269 (MQ=255)                                                                                                                                                                                                                                          caacaaACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACCGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGTGCATGATTCACATGGTATTGGACTGATCCCAAGCTATGTACGCTCCTGGAGTCAGGGGCACCTGACAATTAACCATCCTGCCACCACAGTTACAGCGGAgggaggggggggt  >  2:55683/1‑265 (MQ=255)                                                                                                                                                                                                                                              gctgggtaagatcAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGca                                                                                                                                                                                                               <  1:76826‑M2/53‑1 (MQ=255)                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                                  GTTGCCTTGCTGGCAGCGAACCGATTCCCGAATCGCTGAAAATCCAGATGGCTTGCTGCCTGGTGGCTACGGGTGAAGCGGCAACTATCAGCGACGGCCTGGCGCGCGTTAATCAGGCATTTTAATTCTTTTCTCAGCCGGATGAGCCATGTCATCCGGCTTTTACCCCACCGCAATATGAAATTCCTGCATCTTTATTGACCTTCCCACGCCCGGCGTGCAGCATAAAAATACAACAAACACATAACATAAACAGGAGTTAACCATGGAAAGTGGTCATCGCTTTGATGCTCAGACGCTGCACAGTTTTATTCAGGCTGTATTTCGTCAGATGGGTAGCGAGGAACAAGAAGCGAAATTAGTTGCCGATCATTTAATCGCGGCAAACCTGGCAGGGCATGATTCACATGGTATTGGCATGATCCCAAGCTATGTACGCTCCTGGAGTCAGGGGCACCTGCAAATTAACCATCATGCCAAAACCGTTAAAGAGGCGGGGGCGGCGGTC  >  CP009273/831542‑832049

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.