New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 4532507	16 (0.830)	6 (0.330)	6/258	NT	30.8%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	CP009273	= 4532803	12 (0.670)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)

AATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTT  >  CP009273/4532376‑4532655                                                                                                                                    |                                                                                                                                                     aaTGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATAAAAGACAATTGGGGCCAttttgagtcatagagga                                                                                                                                     >  2:316423‑M1/1‑132 (MQ=255)        ctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGtt                                                                                                                              <  2:34921/149‑1 (MQ=255)                 ccGGATTATGGGAAAGAAAGAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACATTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAtttt                                                                                                                     <  1:253413/149‑1 (MQ=255)                    gATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACATGACTATTGGGGTCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtc                                                                                                                  <  1:128897/149‑1 (MQ=255)                       tATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCa                                                                                                               >  2:309979/1‑149 (MQ=255)                            gaaagaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAAACAATTGGGGCCAAACTGTCCATATGATAAATAAGTTACGTATTTTTTCTaaaagtt                                                                                                          >  2:183635/1‑145 (MQ=255)                                          cATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATAAAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgaggacaaactttttcagtttatttgttgggtta                                                                                            >  1:173044‑M1/1‑91 (MQ=255)                                           gggcagtcgttctgtacactttgctttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaaa                                                                                           >  1:25140‑M1/82‑149 (MQ=255)                                           ataacacaaaaaTTAAAAAGAGACAATGTTTGATTAAACTTATTTATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaaa                                                                                           <  2:64471/142‑1 (MQ=255)                                                        gaaaaaGAGAAGAGGTTTGATTCAACTTATTAATAATAAAGTCAAAAAAACAAAGAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCAt                                                                              <  2:100198/148‑1 (MQ=255)                                                           aaaGAGAAGCGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatct                                                                           <  2:34909‑M1/149‑76 (MQ=255)                                                            actttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTaa                                                                          <  2:182861‑M1/85‑1 (MQ=255)                                                                     ggTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGat                                                                 <  1:270750/149‑1 (MQ=255)                                                                              tAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTTTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAatt                                                        <  1:231524/149‑1 (MQ=255)                                                                              tAACTTATGGATAATAAAGTTAAAAATACAAATAAATACAATTCAATTGGGGTCAATCTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGTATAAAAATATTAAATAACGACAAAAAGCATCTAACTGTTTGATATGTAAatt                                                        <  1:231529/149‑1 (MQ=255)                                                                                      tGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTCTTTTTTCTCAAGCATAAAAATATTAAAAAAAAACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTAt                                                <  1:248683/149‑1 (MQ=255)                                                                                      tGAAAATAAAGTTAAAAAAACAAATAAATACAATACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTAt                                                <  1:69947/149‑1 (MQ=255)                                                                                                gTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggttttt                                      >  1:182861‑M1/1‑37 (MQ=255)                                                                                                   aaaaaaaCAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttctgaa                                   >  1:328778‑M1/1‑34 (MQ=255)                                                                                                    aaaaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAATAGTATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTc                                  <  1:267697/149‑1 (MQ=255)                                                                                                       aaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAAAAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTcaca                               >  1:300259/1‑149 (MQ=255)                                                                                                          cAAATAAATACAAGACAATTGGGGCCAACCTTTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAATTATTAAAAAAAAAAAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCa                            <  2:327946/149‑1 (MQ=255)                                                                                                            ccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCAcc                          <  2:328778‑M1/133‑1 (MQ=255)                                                                                                              taaataCAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagattatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttttggagagaagaatga                        >  1:133984‑M1/1‑23 (MQ=255)                                                                                                                           aTTGGGGCCATACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTaaa           <  2:102226/149‑1 (MQ=255)                                                                                                                                    AAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATAACCTCCGCTATATGTAAAGCTAACGtt  <  1:316423‑M1/149‑1 (MQ=255)                                                                                                                                    |                                                                                                                                                     AATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTT  >  CP009273/4532376‑4532655

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ 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.