New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	4547364 =	26 (1.370)	9 (0.580)	5/84	NT	40.6%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin
	?	W3110S.gb	4547678 =	5 (0.320)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin

TTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTA  >  W3110S.gb/4547610‑4547744                                                                     |                                                                   ttAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATg                                                                  >  1:1261485/1‑71 (MQ=255) ttAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATg                                                                  >  1:281682/1‑71 (MQ=255)             tttatgcttgagaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTg                                                      >  1:369764‑M2/57‑71 (MQ=255)                   cttgagaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGaa                                                <  1:1431664‑M2/21‑1 (MQ=255)                   cttgagaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGaa                                                <  1:1648825‑M2/21‑1 (MQ=255)                     aaaaaGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGaa                                                <  1:607714/69‑1 (MQ=255)                     aaaaaGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGaa                                                <  1:166008/69‑1 (MQ=255)                        gaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCtttt                                                       >  1:273106‑M2/46‑59 (MQ=255)                        gaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACtg                                           >  1:1074278‑M2/46‑71 (MQ=255)                        gaaaaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACtg                                           >  1:550109‑M2/46‑71 (MQ=255)                          gTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACtgtg                                         <  1:337054/71‑1 (MQ=255)                          gTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACtgtg                                         <  1:633359/71‑1 (MQ=255)                           aaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGc                                        <  1:325183‑M2/29‑1 (MQ=255)                           aaaatacgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGc                                        <  1:1435669‑M2/29‑1 (MQ=255)                               tCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAgt                                     <  1:1138961/70‑1 (MQ=255)                                 cgtaacttatttatgatatggacagtttggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGtt                                  >  1:1741143‑M2/37‑71 (MQ=255)                                                            tggccccaaATGTTTCATCTTTTGTGGGAAAACTGTGCAg                                      >  1:347081‑M2/10‑40 (MQ=255)                                                            tggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaaca         >  1:641173‑M2/10‑69 (MQ=255)                                                            tggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaaca         >  1:694695‑M2/10‑69 (MQ=255)                                                            tggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaaca         >  1:1107637‑M2/10‑69 (MQ=255)                                                                 ccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTa  <  1:1463081‑M2/67‑1 (MQ=255)                                                                  caaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaaca         <  1:343535‑M2/60‑1 (MQ=255)                                                                     |                                                                   TTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTA  >  W3110S.gb/4547610‑4547744

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.