New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	4547364 =	5 (0.270)	9 (0.590)	6/82	NT	59.8%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin
	?	W3110S.gb	4547678 =	8 (0.520)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin

AAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAA  >  W3110S.gb/4547297‑4547421                                                                    |                                                          tacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacattt                                                          >  1:171141‑M1/68‑69 (MQ=255)            ttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAAc                                                <  1:879947‑M1/12‑1 (MQ=255)             ggTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATT                                                          >  1:1298332‑M1/1‑57 (MQ=255)                 aacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCata                                        <  1:1447766‑M1/20‑1 (MQ=255)                    tttAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatag                                      <  1:660412‑M1/70‑14 (MQ=255)                    tttAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcata                                       <  1:1485865‑M1/69‑13 (MQ=255)                     ttAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagag                                    >  1:1727917‑M1/1‑56 (MQ=255)                     ttAACCTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAtttt                                               <  1:1103167‑M1/60‑5 (MQ=255)                            aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaag                               <  1:1361732‑M1/69‑21 (MQ=255)                              gccaacactgcacagttttcccccaaaagatgaaacatt                                                           >  1:1554304‑M1/39‑39 (MQ=255)                              gccaacactgcacagttttcccccaaaagatgaaacatTTg                                                         >  1:177477‑M1/39‑41 (MQ=255)                              gccaacactgcacagttttcccccaaaagatgaaacatTTg                                                         >  1:799989‑M1/39‑41 (MQ=255)                               gATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGtt                           <  1:465023/70‑1 (MQ=255)                                caacactgcacagttttcccccaaaagatgaaacatTTggg                                                       <  1:819050‑M1/5‑1 (MQ=255)                                caacactgcacagttttcccccaaaagatgaaacatTTggg                                                       <  1:339829‑M1/5‑1 (MQ=255)                                       aGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTcc                                           <  1:119974/46‑1 (MQ=255)                                        cacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAttt                   >  1:542835‑M1/29‑69 (MQ=255)                                         ttAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCata                                        >  1:1486444/1‑47 (MQ=255)                                          tAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtc               >  1:1592642/1‑71 (MQ=255)                                          cagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtc               <  1:1295079‑M1/45‑1 (MQ=255)                                          cagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtc               <  1:830214‑M1/45‑1 (MQ=255)                                              tttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtctc             <  1:1422437‑M1/47‑1 (MQ=255)                                              aaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCaa           <  1:614068/71‑1 (MQ=255)                                                aaCAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaag                               <  1:26064‑M1/49‑21 (MQ=255)                                                aaCAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaag                               <  1:806297‑M1/49‑21 (MQ=255)                                                  cAAATAAATACAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtt       <  1:203695‑M1/71‑45 (MQ=255)                                                    ccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAttt                   >  1:740211‑M1/17‑57 (MQ=255)                                                       aaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAt                     >  1:1399083‑M1/14‑52 (MQ=255)                                                       aaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAt                     >  1:637150‑M1/14‑52 (MQ=255)                                                       aaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaaaaa  <  1:356411‑M1/58‑1 (MQ=255)                                                         ataCAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaac                 <  1:156501‑M1/54‑35 (MQ=255)                                                         ataCAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaac                 <  1:739579‑M1/54‑35 (MQ=255)                                                           aCAAGACAATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactt               >  1:1379575‑M1/1‑18 (MQ=255)                                                                    |                                                          AAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAA  >  W3110S.gb/4547297‑4547421

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ 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.