New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	4547364 =	6 (0.140)	19 (0.550)	13/82	NT	79.3%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin
	?	W3110S.gb	4547678 =	5 (0.150)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin

GCTTTTTGTCGTTTTTTAATATTTTTATGCTTGAGAAAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  W3110S.gb/4547442‑4547364 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTA  >  W3110S.gb/4547678‑4547744                                                                                                                                                    GCTTTTTGTCGTTTTTTAATATTTTTATGCTTGAG‑AAAAATACGTAACTTATTTATGATATGGACAGTTTG                                                                            >  1:3390066/1‑71             TTTTTAATATTTTTATGCTTGAG‑AAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTT                                                                >  1:1772549/1‑71             TTTTTAATATTTTTATGCTTGAG‑AAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTT                                                                >  1:1767762/1‑71              ttaTAATATTTTTATGCTTGAGAAAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTT                                                                >  1:1790207/4‑71              TTTTAATATTTTTATGCTTGAGAAAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTT                                                                >  1:2869218/1‑71              TTTTAATATTTTTATGCTTGAGAAAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGT                                                                 <  1:502237/70‑1                    TATTTTTATGCTTGAG‑AAAAATTCGTAACTTATTTATGATTTGGTCAGTTTGGCCCCAAATGTTTCATCT                                                          <  1:3361591/70‑1                    TATTTTTATGCTTGAG‑AAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTT                                                         >  1:1424827/1‑71                    TATTTTTATGCTTGAG‑AAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCT                                                          <  1:1149084/70‑1                        TTTATGCTTGAGAAAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTG                                                      >  1:2900818/1‑71                              CTTGAG‑AAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAA                                                >  1:3231563/1‑70                               TTGAG‑AAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTGTAGGGGGAAA                                               >  1:2105853/1‑70                                   GAAAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAA                                              <  1:3992332/68‑1                                      AAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTG                                         >  1:1571300/1‑70                                      AAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTG                                         >  1:591841/1‑70                                            CGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGT                                   <  1:1625660/70‑1                                            CGTAACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGT                                   <  1:2053091/70‑1                                            CGTAACTTATTTATGATATGGACAGTTTGGCCCCAAA                                                                    >  1:357117/1‑37                                                ACTTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGG                                >  1:2075215/1‑69                                                  TTATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTT                                                         <  1:1729800/42‑1                                                    ATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTC                           >  1:1671960/1‑70                                                    ATTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTC                           >  1:3020261/1‑70                                                     TTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTga                          <  1:869227/70‑3                                                     TTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCA                          <  1:3971465/70‑1                                                     TTTATGATATGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCA                          <  1:65274/70‑1                                                              TGGACAGTTTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTT                 >  1:1185175/1‑70                                                                       TGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACA         >  1:2795195/1‑69                                                                       TGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACA         >  1:1162082/1‑69                                                                             CAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTA  >  1:180566/1‑70                                                                               AATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTA  >  1:1577812/1‑68                                                                               AATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGT                                   >  1:2548407/1‑35                                                                                                                                                    GCTTTTTGTCGTTTTTTAATATTTTTATGCTTGAGAAAAAATACGTAACTTATTTATGATATGGACAGTTTGGCCCCAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  W3110S.gb/4547442‑4547364 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tggccccaaATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTA  >  W3110S.gb/4547678‑4547744

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.