New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	4532499 =	8 (0.450)	6 (0.360)	5/258	NT	42.1%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	CP009273	4532813 =	9 (0.540)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)

TACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAG  >  CP009273/4532354‑4532647                                                                                                                                                  |                                                                                                                                                     tACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGG                                                                                                                                                   >  2:248241‑M1/1‑149 (MQ=255)  cgattgccagagttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTggg                                                                                                                                                  >  2:113424‑M1/145‑149 (MQ=255)       gCGTTATTCCGCCAGTAATGCTGCTCGCTTTGCCGGATTATGGCAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAGTTATCGTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCaa                                                                                                                                             <  2:177548/149‑1 (MQ=255)          agagttttaattttcatgctgctttcctttcaaaaaactatttctaactcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTtggggcccactt                                                                                                                                          <  1:59617‑M1/13‑6 (MQ=255)               ccGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCa                                                                                                                                     >  2:118157/1‑149 (MQ=255)                cGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAACCTCATAAACGAACAATCAACAAGTGAAGCGGCTTGTTTTAACTGATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAGAATTGGGGCCAAACTGTCCat                                                                                                                                    >  2:216457/1‑149 (MQ=255)                          gctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaag                                                                                                                          >  2:31833‑M1/1‑129 (MQ=255)                           gctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCataaataa                                                                                                                         >  2:96037‑M1/120‑149 (MQ=255)                           ctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCataaataa                                                                                                                         >  1:46541/1‑149 (MQ=255)                               ctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttccccaaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTa                                                                                                                     <  2:140820‑M1/34‑1 (MQ=255)                                 gTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcg                                                                                                                   <  2:121282‑M1/149‑28 (MQ=255)                                 gTTTGGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAAGAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcg                                                                                                                   <  2:121281‑M1/149‑28 (MQ=255)                                           aTTATGGGAAAGAAATAATCTCATAATCGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtct                                                                                                         <  1:72992/149‑1 (MQ=255)                                                          tcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacaattttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAatat                                                                                          <  1:49902‑M1/61‑1 (MQ=255)                                                                 aTAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcgcacaaactctttcagtttatttgttggcttaa                                                                                   >  2:289582‑M1/1‑90 (MQ=255)                                                                                acactttgttttgtaaacgagtttgactgccaacactgcacagttttccgccaaaagatgaaagatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTTTCAAGCTTAAAAATTTTAAAAAACGCCAAAAAGAATCt                                                                    <  1:133673‑M1/83‑1 (MQ=255)                                                                                acactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCt                                                                    <  1:253555‑M1/83‑1 (MQ=255)                                                                                      gaagagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAACACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatt                                                              <  2:103305‑M1/149‑81 (MQ=255)                                                                                              ttGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatg                                                      <  2:188781‑M1/149‑89 (MQ=255)                                                                                                         taatGATAATAAAGTTAAAAAAACAAATAAATACAAGCCAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTc                                           <  1:197834/146‑1 (MQ=255)                                                                                                         tATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatcttta                                                                <  2:284890‑M1/128‑79 (MQ=255)                                                                                                         tATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAgtttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatcttta                                                                >  1:284890‑M1/1‑50 (MQ=255)                                                                                                                           aaaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTca                         <  1:118157/149‑1 (MQ=255)                                                                                                                              aaCAAATAAATACAAGACAATTGGGGCCAAACTGCTCATGTCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACAt                      <  2:162546/149‑1 (MQ=255)                                                                                                                                   ataaataCAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttttggagaggaagagc                 <  2:160084‑M1/149‑126 (MQ=255)                                                                                                                                        gatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCt            >  2:49902‑M1/11‑149 (MQ=255)                                                                                                                                                  TTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAg  <  1:245018‑M1/149‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                     TACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAG  >  CP009273/4532354‑4532647

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.