New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1207790 =	22 (0.430)	12 (0.250)	10/452	1.9	36.6%	coding (290/630 nt)	ycfK	protein StfP
	?	NC_000913	1209619 =	21 (0.440)					intergenic (‑500/‑66)	tfaE/pinE	putative tail fiber assembly protein TfaE/site‑specific DNA recombinase

CGTTGCATACCCCTGAATACTTAAAATAGAGCGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACAAGATAAGCGGCACAAAGTCCGAAAGGCCGGGACTGAAAAAACTGCTCAGGACATTATCGGCAGGTGACACTCTGGTTGTCTGG  >  NC_000913/1209374‑1209867                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                         cGTTTCATACCCCTGAATTCTTAAAATACAGCTGCCTGTATCAATCCCCCGCCCGTCAGCCCA‑TCACATAATAAACTCACCACGTAAATCAGTCAATTTATTTGGCGGATAAGCCTTGGCCAGCTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCATCCAGCCTTGTGGCGGAGTGGCTGAAGGCCACGGAACCTGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTa                                                                                                                                                                                                                                                     <  2:530751/251‑1 (MQ=255)        gataggttagctaaaaatgtcataaattgcaacaacggcaacacaggcaatattaaacgcaaccgggaatacaactgtatttccatcccccccagaggcagatgcttttgcggcattccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGaaa                                                                                                                                                                                                                                                <  2:257352‑M2/11‑1 (MQ=255)         aCCCCTGAATACTTAAAATAGAGCGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCCACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAAt                                                                                                                                                                                                                                              >  2:188857/1‑250 (MQ=255)           tggtgcgttgacaatgtcataatttgcaacaacggcaacacaggcattattaaacgcaaccgggaattcaactgtatttccagcccccccagaggcagatgcttttgcggcattccacccccactgaatgattactgattgctcaataccaccaatcataaccgttatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATg                                                                                                                                                                                                                                             <  2:465359‑M2/14‑1 (MQ=255)             cTGAATACTTAAAATAGAGCGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATga                                                                                                                                                                                                                                            >  1:342284/1‑248 (MQ=255)                   aCTTAAAATAGAGCGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTGTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAAc                                                                                                                                                                                                                                   <  1:122143/251‑1 (MQ=255)                            agagCGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATg                                                                                                                                                                                                                          <  1:520635/251‑1 (MQ=255)                             tagCGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCCCGGAACCGGGACACCAACAGGTACTGCAGAGCCTTCTCCCAAACCCACGTTTATGAAAATGAACAAAAAACAAGCAAATgg                                                                                                                                                                                                                         >  2:302017/2‑251 (MQ=255)                                cGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGcat                                                                                                                                                                                                                      >  1:523156/1‑251 (MQ=255)                                   ccTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGcatcat                                                                                                                                                                                                                   <  1:286609/251‑1 (MQ=255)                                    gcaacaacggcaacacatgcattattaaacgcaaccgggaatacaactgtatttccatcccccccagaggcagatgcttttgcggcattccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGcatcat                                                                                                                                                                                                                   <  1:253739‑M2/40‑1 (MQ=255)                                        caacggcaacacaggcattattaaaagcaaccgggactacaactgtatttccatcccccccagaggcagatgcttttgcggcattccacccccactgaatgattactgattgctcaatacccccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaacccaaCGTTTCTGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCt                                                                                                                                                                                                               >  2:318421‑M2/208‑251 (MQ=255)                                                                   aC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCtt                                                                                                                                                                                   >  1:277302/1‑251 (MQ=255)                                                                       aaTAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGAAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTAACAGGGGGATTTAACATGCTTAtt                                                                                                                                                                                >  1:190018/1‑251 (MQ=255)                                                                                      atttccatcccccccagaggcagatgcttttgcggcattccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGt                                                                                                                                                                  <  1:435013‑M2/89‑1 (MQ=255)                                                                                             ggCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATA‑CAAGCAAATGGCCTCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTTGCTATGTACGCGTATcaaaaa                                                                                                                                                          >  2:137283/1‑247 (MQ=255)                                                                                                           agatgcttttgcggcattccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAacac                                                                                                                                             >  1:138573‑M2/141‑250 (MQ=255)                                                                                                                      ttGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACaa                                                                                                                                   <  1:302017/249‑1 (MQ=255)                                                                                                                         ccAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGa                                                                                                                                          >  1:200490/1‑239 (MQ=255)                                                                                                                         ccAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGGTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGa                                                                                                                                          <  2:200490/239‑1 (MQ=255)                                                                                                                          cAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCGTTTACCAGGGGGATTTAACAAGCTTATAGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAAt                                                                                                                             <  2:342284/251‑1 (MQ=255)                                                                                                                            tccacccccactgaatgattactgattgctcaataccaccaatcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATAATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATgc                                                                                                                           >  1:564329‑M2/124‑251 (MQ=255)                                                                                                                                  ggTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCGGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTACCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTTCGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGaa                                                                                                                     <  2:193885/251‑1 (MQ=255)                                                                                                                                           cagcagAAAAAGCGGCACCATTGCAATTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAgg                                                                                                            <  2:277302/251‑1 (MQ=255)                                                                                                                                               agAACAAGAGGCAACATTGCCTTTCAGCCAGACTGTTGGCGGAGTGGATGAAGGCCACGGAACCGGGACACCAACAGGGAATGCAGAGCCTTCTACCAAACAAACGCTTATGCAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTAAGCGTATCAGCAAATGACAAGAACACAGATCTACATAGCAATGCGCTGAACtgtgacggtgac                                                                                                        >  2:202655/1‑243 (MQ=255)                                                                                                                                                cgccacgacgctcttccgagtttcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgatttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAATTGTGCAGGATGCg                                                                                                       <  2:395474‑M2/148‑1 (MQ=255)                                                                                                                                                                   aTTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACaa                                                                                    <  1:188857/251‑1 (MQ=255)                                                                                                                                                                    aatcagtacctgtatagctatcaaaccggtgcgtcctaatgtagcctttgctgcattgagttgtgcaccctctcccaaaccaaCGTTTATGATAATGAAGAAATAACAAGCAAATGGCATCAGTCCGGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGTTTTACAACGTAATTCGCCGAACTGTGCAGGATGCGAGCTGCTTTTTGAAGAcaaa                                                                                   <  2:268445‑M2/168‑2 (MQ=255)                                                                                                                                                                      tcataaccggtatagctatgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAATTGTGCAGGATGCg                                                                                                       >  1:395474‑M2/82‑229 (MQ=255)                                                                                                                                                                      tCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACAAGa                                                                                  <  1:228801/250‑1 (MQ=255)                                                                                                                                                                                       atgaaaccggtgcgtcctaatgtagccgttgctgcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACAAGATAAGCGGCACCAAGTCCg                                                                >  1:497383‑M2/65‑251 (MQ=255)                                                                                                                                                                                                gAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCATCTCACAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATTGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACAAGATAAGCGGCACAAAGTCCGAAAGGCCg                                                        <  1:445592/250‑1 (MQ=255)                                                                                                                                                                                                                        gcattgagttttgctccttctcccaaaccaaCGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACAAGATAAGCGGCACAAAGTCCGAAAGGCCGGGACTGAAAAAACTGCTCAGGAc                                 <  1:372463‑M2/218‑1 (MQ=255)                                                                                                                                                                                                                                       ccTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACAAGATAAGCGGCACAAAGTCCGAAAGGCCGGGACTGAAAAAACTGCTCAGGACATTATCGGCAGGTGac                 <  1:88313/250‑1 (MQ=255)                                                                                                                                                                                                                                             cccAAACCAACGTTGATGAAGATGAAGAAATAACAAGCAACTGGCATCATTCCTGCTTTTAACAGGGGGAATTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACTAGAACCAAGATCTACAAAGTAATGCGCTGAACTGTGCAGGATGCGAGATGCTTTTTGAAGAAAAGCTAAGAGGCACAAAGTCGGAAAGGCCGGGACTGAAAAAACTGTTCAGTCCATTATCGGCAgagagcactctgg          >  2:547157/1‑239 (MQ=255)                                                                                                                                                                                                                                                      aCGTTTATGAAAATGCAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATTTACGCGTATCCACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGCTGCGAGCTGATTTTTGAAGACAAGATAAGCGGCACCAAGTCCCAAAGGCCGGGACTGACAAAACTGCTCAGGACATTATCgcctggtggcaccctcggagtatgg  >  2:180069/1‑226 (MQ=255)                                                                                                                                                                                                                                                       |                                                                                                                                                                                                                                                         CGTTGCATACCCCTGAATACTTAAAATAGAGCGACCTGTATCAATCCCCCGCCCGTCATCCCAGCCAC‑GAATAAACTCACCACGTAAATCAGGCAATTTATTTGTCGGATAAGCCTTTGCCAGTTCCGGGTATTCTTCAGCAGAAAAAGCGGCACCATTGCATTTCAGCCAGCCTGTTGGCGGAGTGGCTGAAGGCCACGGAACCGGGACACCAACAGGTAATGCAGAGCCTTCTCCCAAACCAACGTTTATGAAAATGAAGAAATAACAAGCAAATGGCATCATTCCTGCTTTTACCAGGGGGATTTAACATGCTTATTGGCTATGTACGCGTATCAACAAATGACCAGAACACAGATCTACAACGTAATGCGCTGAACTGTGCAGGATGCGAGCTGATTTTTGAAGACAAGATAAGCGGCACAAAGTCCGAAAGGCCGGGACTGAAAAAACTGCTCAGGACATTATCGGCAGGTGACACTCTGGTTGTCTGG  >  NC_000913/1209374‑1209867

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 39 ≤ 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.