New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1196562 =	41 (1.020)	4 (0.110)	3/278	NT	11.0%	intergenic (‑74/‑391)	xisE/ymfI	e14 prophage; putative excisionase/e14 prophage; uncharacterized protein
	?	CP009273	1196651 =	28 (0.780)					intergenic (‑163/‑302)	xisE/ymfI	e14 prophage; putative excisionase/e14 prophage; uncharacterized protein

ACAAAATAAATTCTGCTTAGCATAACGACGCAATGTGGACACACTTGGAGGATTACTTCTGTATTTTTCAGCAGCCCATTCTTCAAGAGTTAACATTTGAAGCATATGCGATCACCTTATTACTACACTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTGAGCCGCATTCACCACAACGCTAAGGATTCTCTCTGGTTGAAAATACTTAGCTGTTATGTGCCTGTCTTTTCACCACTTCAGGCTC  >  CP009273/1196384‑1196906                                                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                                 aCAAAATAAATTCTGCTTAGCATAACGACGCAATGTGGACTCACTTGGAGGATTACTTCTGTATTTTTCAGCAGCCCATTCTTCAAGAGTTAACATTTGAAGCATATGCGATCACCTTATTACTACACTAACTGCGTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAggg                                                                                                                                                                                                                                                           <  1:311994/275‑1 (MQ=255)                                                     ttACTTCTGTATTTTTCAGCAGCCCATTCTTCAAGAGTTAACATTTGAAGCATATGCGATCACCTTATTACTACACTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGAGTTACCAGAAAGGACTAAGGAAAAAANTACTACGTCCAACACTAca‑cccat                                                                                                                                                                                                      >  2:434744/1‑274 (MQ=255)                                                                          gcCCATTTGTCAAGATTTAACATTTGTAGCTTATGCGATCACCTTATTACTACACTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGt                                                                                                                                                                                 <  1:367880/275‑1 (MQ=255)                                                                                                                  aCCTTATTACTACACTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTATGTTTTGTAAAACGGGAGGTACCAGAAAGGACTACGGAAAAAACTGGTACCGCCAAGCCTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGACCCCGGTGGCTGGCAAAGGTTGCAAACCAGGCgggggg                                                                                                                                         >  1:208286/1‑275 (MQ=255)                                                                                                                      tattaCTACACTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCggagtgagat                                                                                                                                     >  2:80106/1‑267 (MQ=255)                                                                                                                       attaCTACACTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGAGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGCTGCCTGGCGAAAGTTGCACACCAATCggggggtgatc                                                                                                                                    >  2:653293/1‑270 (MQ=255)                                                                                                                              cacTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAgg                                                                                                                                                >  2:161053/1‑256 (MQ=255)                                                                                                                                  aaCTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTaaaa                                                                                                                                                                                                                                                               <  1:206553/142‑1 (MQ=255)                                                                                                                                  aaCTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTaaa                                                                                                                                                                                                                                                                <  1:628024/141‑1 (MQ=255)                                                                                                                                  aaCTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCggg                                                                                                                                            <  1:161055/256‑1 (MQ=255)                                                                                                                                      gCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGAGCGGTACCAGAACGGACTAAGGAAAAAACTGGTACCGCCAAGACTACACCACA‑CATAAAGTTGTGGTGACGGGTGCCCCCGGTGCCTGACGAAGATTGCACACAAGGCTTGTGGGTATCCACaaaatttctatt                                                                                                                     >  2:590640/1‑267 (MQ=255)                                                                                                                                        ttATTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCACTGTTCTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGt                                                                                                                   <  1:653307/275‑1 (MQ=255)                                                                                                                                         tAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTc                                                                                                                  <  1:434751/275‑1 (MQ=255)                                                                                                                                                            cTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACGACA‑CACAGCATAAAGTTGTNGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACAcgc                                                                                               >  1:580538/1‑275 (MQ=255)                                                                                                                                                                              tctcCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGTGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTa                                                                                                                                                                                                              >  2:552967/1‑147 (MQ=255)                                                                                                                                                                                  cacaAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAAc                                                                                                                                                                                                                               >  2:307080/1‑126 (MQ=255)                                                                                                                                                                                  cacaAAACAGAGAAGAGCACCTGGGGCCACAGATATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGTAAAAAACTGGTCCCGCCAAGACTaca‑ca                                                                                                                                                                                                         <  1:552978/147‑1 (MQ=255)                                                                                                                                                                                   ACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTGAGCCGCATTcacca                                                                         >  1:80107‑M1/1‑274 (MQ=255)                                                                                                                                                                                     AAAAAAGAGGAGAGTACCTGTGGCCAAAGCTATCAGGATGGTTTGTGTTATTAACCCGTCATCCGGGGATACTCTTGTCTGTTTTGTAAAAAGGGAGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTGAGCCGCATTCACcaca                                                                       >  1:182551‑M1/1‑274 (MQ=255)                                                                                                                                                                                      AAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGt                                                                                                                                                                                                                           >  1:307085‑M1/1‑126 (MQ=255)                                                                                                                                                                                               AGAGCACCTGTGGCCACGGCTCTCGGGGTGAGTAGTGTTACTAATCCTTCTTCCGGGTATACTCTGCTCTTTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACATCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTTAGCCGCATTCACCACAACGCTAAgg                                                              >  2:208284‑M1/1‑273 (MQ=255)                                                                                                                                                                                                        gtgACCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTaaaa                                                                                                                                                                                                                                                               >  2:393539/1‑72 (MQ=255)                                                                                                                                                                                                            ccACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAggg                                                                                                                                                                                                                                                           <  1:393546/72‑1 (MQ=255)                                                                                                                                                                                                             tgacgggttaataacccgacccatcctgatagctgtggccacaggtgctcttctctgttttgtAAAAAGGGCGGTACCAGAAAgg                                                                                                                                                                                                                                             >  1:332790‑M2/64‑85 (MQ=255)                                                                                                                                                                                                             tgacgggttaataacccgacccatcctgatagctgtggccacaggtgctcttctctgttttgtAAAAAGGGCGGTACCAGAAAGGAc                                                                                                                                                                                                                                           >  1:490868‑M2/64‑87 (MQ=255)                                                                                                                                                                                                                 gggttaataacccgacccatcctgatagctgtggccacaggtgctcttctctgttttgtAAAAAGGGCGGTACCAGAAAGGACTa                                                                                                                                                                                                                                         <  2:332784‑M2/26‑1 (MQ=255)                                                                                                                                                                                                                 gggttaataacccgacccatcctgatagctgtggccacaggtgctcttctctgttttgtAAAAAGGGCGGTACCAGAAAGGACTAAg                                                                                                                                                                                                                                       <  2:490859‑M2/28‑1 (MQ=255)                                                                                                                                                                                                                     tCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTAc                                                                                                                                                                                                                                                     >  2:39748/1‑69 (MQ=255)                                                                                                                                                                                                                         gATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGa                                                                                                                                                                                                                                                 <  1:39749/69‑1 (MQ=255)                                                                                                                                                                                                                          aTGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTtgt                                                                                                                                                                                           >  2:492386/1‑121 (MQ=255)                                                                                                                                                                                                                            gggTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGCCGGTTGCACACNCGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTGAGCCGCATTCCCCACAAAGCTCAGGATTCTCTCTGGTTTAAAAtctgtatcttat                                >  1:686694/1‑263 (MQ=255)                                                                                                                                                                                                                            gggTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGGAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTgcgc                                                                                         >  1:697500/1‑217 (MQ=255)                                                                                                                                                                                                                              gTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTgtggtg                                                                                                                                                                                       <  1:492395/121‑1 (MQ=255)                                                                                                                                                                                                                                cGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTGAg                                                                                     <  2:697486/217‑1 (MQ=255)                                                                                                                                                                                                                                  ggTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTAc                                                                                                                                                                                                                                                     >  1:338792/1‑56 (MQ=255)                                                                                                                                                                                                                                      attaACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGa                                                                                                                                                                                                                                                 <  2:338786/56‑1 (MQ=255)                                                                                                                                                                                                                                            ccGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTG‑CCCCGGTGCCTGGCGAAGGt                                                                                                                                                           >  2:319886/1‑134 (MQ=255)                                                                                                                                                                                                                                             cGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCGCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATGCACAGAAGGTCGATTGTCAGCCTCACCCTTAACCCGCGTGCGCTGAGCCGCAGTCACCACAACGCGAAGGATTCTGCCAGGTTGAAAATACTTAGACGATGTGTCCCGGTCTTCTcac              >  2:134821/1‑275 (MQ=255)                                                                                                                                                                                                                                                cATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTG‑CCCCGGTGCCTGGCGAAGGTTGca                                                                                                                                                       <  1:319892/134‑1 (MQ=255)                                                                                                                                                                                                                                                         aTACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGNGCGCTGAGCCGCATTCACCACAACGCTAAGGATTCTCTCTGGTTGAAAATACTTAGCTGTTATGTGCCTGTCTTTTCACCACTTCAGGCTc  >  1:575584/1‑275 (MQ=255)                                                                                                                                                                                                                                                                       tttgtAAAAAGGGCGGTACCAGAAAGGAAAAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTGAGCCGCANTc                                                                             >  1:523826‑M2/6‑186 (MQ=255)                                                                                                                                                                                                                                                                         tgtAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTTCGCCTCAAcc                                                                                                        >  1:670680‑M2/4‑157 (MQ=255)                                                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                                 ACAAAATAAATTCTGCTTAGCATAACGACGCAATGTGGACACACTTGGAGGATTACTTCTGTATTTTTCAGCAGCCCATTCTTCAAGAGTTAACATTTGAAGCATATGCGATCACCTTATTACTACACTAACTGCTTAGTCTCAGCATATCGACCCTGCACGGTCGGTTAGTTTCTCCACAAAACAGAGAAGAGCACCTGTGGCCACAGCTATCAGGATGGGTCGGGTTATTAACCCGTCATCCGGGGATACTCTTCTCTGTTTTGTAAAAAGGGCGGTACCAGAAAGGACTAAGGAAAAAACTGGTACCGCCAAGACTACA‑CACAGCATAAAGTTGTGGTGTCGGGTGCCCCCGGTGCCTGGCGAAGGTTGCACACCAGGCGGGTGGGTATCCACAGAAGGTCGATTGTCAGCCTCAACCTTAACCCGCGTGCGCTGAGCCGCATTCACCACAACGCTAAGGATTCTCTCTGGTTGAAAATACTTAGCTGTTATGTGCCTGTCTTTTCACCACTTCAGGCTC  >  CP009273/1196384‑1196906

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 20 ≤ 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.