New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	= 4547372	16 (0.330)	26 (0.650)	6/92	0.4	75.0%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin
	?	W3110S.gb	= 4547668	4 (0.100)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin

AAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAA  >  W3110S.gb/4547612‑4547722                                                         |                                                       aaGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggcc                                                   >  1:1110580‑M2/1‑57 (MQ=255) aaGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggcc                                                   >  1:4453812‑M2/1‑57 (MQ=255) aaGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggcc                                                   >  1:4210866‑M2/1‑57 (MQ=255) aaGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggcc                                                   >  1:2343822‑M2/1‑57 (MQ=255) aaGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggcc                                                   >  1:7714‑M2/1‑57 (MQ=255)     caacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaa                                               <  1:1717540‑M2/62‑10 (MQ=255)     caacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaa                                               <  1:4033449‑M2/62‑10 (MQ=255)     caacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggcccca                                                <  1:2941298‑M2/61‑9 (MQ=255)       acaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAAt                                             >  1:296922/1‑62 (MQ=255)          aaTAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaattgtc                                          >  1:4069819‑M2/1‑48 (MQ=255)                cTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgta                                     <  1:4564561‑M2/61‑20 (MQ=255)                cTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgta                                     <  1:3598054‑M2/61‑20 (MQ=255)                       aGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttg                             >  1:1857394‑M2/1‑35 (MQ=255)                       aGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttg                             >  1:2112058‑M2/1‑35 (MQ=255)                       aGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttg                             >  1:3500992‑M2/1‑35 (MQ=255)                       aGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAAtggccccaattgtc                                          >  1:4593463‑M2/1‑35 (MQ=255)                            gTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGaaaa                        >  1:515384/1‑62 (MQ=255)                            gTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGaaaa                        >  1:4657651/1‑62 (MQ=255)                            gTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGaaa                         >  1:632367/1‑61 (MQ=255)                                     gCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttgt                            >  1:671206‑M2/1‑21 (MQ=255)                                     gCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttgt                            >  1:4470974‑M2/1‑21 (MQ=255)                                     gCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttgt                            >  1:1672710‑M2/1‑21 (MQ=255)                                     gCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttgt                            >  1:2896512‑M2/1‑21 (MQ=255)                                     gCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttgt                            >  1:2839477‑M2/1‑21 (MQ=255)                                     gCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttgt                            >  1:2585048‑M2/1‑21 (MQ=255)                                     gCTTTCCTCTATGAGTCAAAAtggccccaattgtcttgtatttatttgt                            >  1:2152488‑M2/1‑21 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:575967‑M2/52‑40 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:1376139‑M2/52‑40 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:4454157‑M2/52‑40 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:3689496‑M2/52‑40 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:2829516‑M2/52‑40 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:2521306‑M2/52‑40 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:2381833‑M2/52‑40 (MQ=255)                                             ctATGAGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:1545478‑M2/52‑40 (MQ=255)                                             ctATGAATCAAAAtggccccaattgtcttgtatttatttgtttttttaactt                 <  1:3129777‑M2/52‑40 (MQ=255)                                               aTGAGTCAAAAtggccccaattgtcttgtatttatttg                             >  1:4366316‑M2/1‑11 (MQ=255)                                                  aGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactttattatcaataagtt  >  1:3068238‑M2/1‑8 (MQ=255)                                                  aGTCAAAAtggccccaattgtcttgtatttatttgtttttttaactttattatcaataagtt  >  1:1580426‑M2/1‑8 (MQ=255)                                                         |                                                       AAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAA  >  W3110S.gb/4547612‑4547722

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ 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.