New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	W3110S.gb	= 4547372	31 (0.610)	5 (0.120)	5/84	NT	14.6%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin
	?	W3110S.gb	= 4547668	33 (0.790)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin

ATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  W3110S.gb/4547294‑4547372 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttggggccaTTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTATTGT  <  W3110S.gb/4547668‑4547599                                                                                                                                                       ATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT                                                                                >  1:3579241/1‑71  TTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATT                                                                               <  1:255709/71‑1    AAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGG                                                                             >  1:4656922/1‑71        AGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCC                                                                         <  1:3773978/71‑1        AGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGC                                                                          >  1:3874714/1‑70         GAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCA                                                                        <  1:1008230/71‑1         GAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCA                                                                        <  1:932918/71‑1             AGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTT                                                                    <  1:1752217/71‑1              GAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGG                                                                             >  1:277282/1‑61                  TTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATT                                                                               <  1:1534354/55‑1                      ATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCA                                                                        <  1:2584684/58‑1                       TTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT                                                                                <  1:2714813/49‑1                        TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT                                                                                <  1:4057234/48‑1                                  GATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGG                                                                            >  1:2220544/1‑42                                  GATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT                                                                                >  1:2074327/1‑38                                  GATAATAAAGTTAAAAAAACAAATAAATACAAGACAAT                                                                                >  1:3943846/1‑38                                            TTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATA                                                            <  1:3049743/48‑1                                             TAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGG                                                        <  1:4051556/51‑1                                               AAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTT                                  >  1:993679/1‑71                                                AAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTT                                 <  1:3910548/71‑1                                                 AAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAA                                                      >  1:2924647/1‑49                                                                  GACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC                 >  1:1497973/1‑69                                                                       TTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCT                >  1:3366255/1‑65                                                                       TTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTAT                         >  1:3945326/1‑56                                                                       TTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTC                                >  1:1359401/1‑49                                                                         GGGGACATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTT                                   <  1:2853753/44‑1                                                                          GGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTC        <  1:2780402/70‑1                                                                          GGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTC        <  1:1379343/70‑1                                                                           GGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTA      <  1:2127635/71‑1                                                                             CCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATA           >  1:4032931/1‑64                                                                              CATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTATTG   >  1:2309960/1‑71                                                                               ATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTATTGT  >  1:1801590/1‑71                                                                                                                                                       ATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  W3110S.gb/4547294‑4547372 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttggggccaTTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTATTGT  <  W3110S.gb/4547668‑4547599

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.