New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 = 45325079 (0.440)7 (0.360) 7/260 NT 37.4% intergenic (+57/‑425) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
?CP009273 = 4532803 15 (0.780)intergenic (+353/‑129) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)

GCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAG  >  CP009273/4532382‑4532647
                                                                                                                             |                                                                                                                                            
gctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatc                                                                                                                      >  2:172824‑M1/1‑126 (MQ=255)
 ctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcg                                                                                                                     >  2:348944‑M1/1‑125 (MQ=255)
  ctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTAc                                                                                                                    >  2:341295‑M1/116‑150 (MQ=255)
           caaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatATGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAtttttt                                                                                                           <  1:306348‑M1/44‑1 (MQ=255)
                                   cATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaaa                                                                                   >  1:28127/1‑150 (MQ=255)
                                    gggcagtcgttccgtaccctttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaatcatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCACAATCATAATAATATTAAAAAAc                                                                                  >  1:310304‑M1/82‑150 (MQ=255)
                                    aTAAACGCAAAATTAAAAAGAGACGAGGTTTGATTTAACACTTTGGCAATAAAGTTAAAAACAAGCCTAGTAACAAGACATTTGGGGGGGGACTGGCCATATCAGAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAAc                                                                                  <  2:173417/150‑1 (MQ=255)
                                     tAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaaaag                                                                                 >  2:78729/1‑148 (MQ=255)
                                       aaCGAAAAATTAAAAAGAGAAGAGGTTAAATAAAAAAAAATAATAAAAAAGTAAAAAAAACAAATAAACACAAGACAATTGCGGCCAAACTGTACATATCATAAATAAGTTACGTATTTTAAAAAAAAAAAAAAAATATTAAAAAACGAc                                                                               <  1:212582/150‑1 (MQ=255)
                                        aCGAAAAATTAAAAAGAGAAGAGGGTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattc                                                                              <  2:269473‑M1/150‑65 (MQ=255)
                                         cGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACaa                                                                             >  1:191497/1‑150 (MQ=255)
                                                             ttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGat                                                         <  1:236437‑M1/94‑1 (MQ=255)
                                                             agGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGat                                                         <  2:191497/150‑1 (MQ=255)
                                                             agGTTTGATTTAACTTAGTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGat                                                         <  2:67891/150‑1 (MQ=255)
                                                              tgTTTGATTGAACTTATGCATAATACAGTTAAAAAAACAAATAAATACAAGTCTATTGGGGCCCATCTGTCCATATCACAAATAAGTTACGTAGTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGatn                                                        <  2:129451/149‑2 (MQ=255)
                                                               gTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagat                                                       >  2:359183‑M1/1‑63 (MQ=255)
                                                                              ttGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTAt                                        <  2:248997/150‑1 (MQ=255)
                                                                                          ttAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttttgg                            <  2:160037‑M1/150‑115 (MQ=255)
                                                                                             aaaaaaCAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttttggaga                         <  1:359183‑M1/150‑118 (MQ=255)
                                                                                                        aaataCAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttacttgttggcttaatattctattgttatctttatttatagatgtttatattgaaggaggtggtttttggggtgaagaatgagg              >  2:216439‑M1/1‑22 (MQ=255)
                                                                                                             ggagacatTTGGGGCCAAACTGTCCATATCATAAATAAGGTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACTAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCtata         >  1:116546‑M1/9‑150 (MQ=255)
                                                                                                              gaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTatat        >  2:236437‑M1/8‑150 (MQ=255)
                                                                                                                    tTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGCAAAAAAGCATCTATCTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCtccgctatatttacag  <  1:216439‑M1/149‑7 (MQ=255)
                                                                                                                             |                                                                                                                                            
GCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAG  >  CP009273/4532382‑4532647

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.