New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 4532507	9 (0.160)	49 (1.020)	22/116	0.5	86.9%	intergenic (+57/‑425)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	CP009273	= 4532803	7 (0.150)					intergenic (+353/‑129)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)

AAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/4532434‑4532507 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttggggccaTTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTAT  <  CP009273/4532803‑4532737                                                                                                                                               AAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTG                                                                           >  1:1696805/1‑68   AGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGG                                                                         >  1:4546985/1‑68   AGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGG                                                                         <  1:4593573/68‑1   AGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGG                                                                         >  1:2730870/1‑68   AGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGG                                                                         >  1:2640428/1‑68     AGAAGAGGTTTGATTTAACTTATTGACAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGC                                                                       <  1:3232972/68‑1        AGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAT                                                                    <  1:1007790/68‑1        AGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAT                                                                    <  1:4386166/68‑1        AGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAT                                                                    >  1:3016568/1‑68           GGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGCCAATTGGGGCCATTTT                                                                 >  1:2697060/1‑68           GGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCTTTTT                                                                 >  1:328581/1‑68           GGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTT                                                                 >  1:2702320/1‑68             TTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGA                                                               >  1:269552/1‑68             TTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGA                                                               <  1:1750111/68‑1               TGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACT                                                             <  1:2569847/68‑1                  TTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCAT                                                          >  1:3305729/1‑68                  TTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCAT                                                          <  1:4456468/68‑1                  TTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCAT                                                          >  1:1512037/1‑68                  TTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCAT                                                          >  1:3612393/1‑68                  TTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCAT                                                          <  1:4571722/68‑1                  TTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCAT                                                          >  1:1788389/1‑68                    TAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAG                                                        <  1:1938558/68‑1                     AACTTATTGATAATAAAGTAAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGA                                                       <  1:1187242/68‑1                       CTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGG                                                     >  1:3995475/1‑68                       CTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGG                                                     <  1:861802/68‑1                       CTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGG                                                     <  1:1826261/68‑1                       CTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGG                                                     <  1:4148005/68‑1                       CTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGG                                                     >  1:4046659/1‑68                       CTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGG                                                     <  1:703979/68‑1                                  TAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCG                                          <  1:4741656/68‑1                                  TAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCG                                          <  1:3626199/68‑1                                   AAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGG                                         <  1:3262122/68‑1                                    AAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGc                                        >  1:1179705/1‑67                                    AAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGA                                        >  1:897920/1‑68                                     AGTTAAAAAAACAAATAAATACAAGACGATTGGGGACATTTTGACTCATAGAGGAAAGCGTCGCGGAC                                       >  1:3508037/1‑68                                     AGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAACGCATCGCGGAC                                       >  1:3151957/1‑68                                     AGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGAC                                       >  1:3509134/1‑68                                     AGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGAC                                       >  1:847698/1‑68                                          AAAAAACAAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACT                                  <  1:3041581/68‑1                                                 AAATAAATACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAG                           <  1:243219/68‑1                                                  AATAAATACAATACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGT                          <  1:300223/68‑1                                                         ACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTG                   >  1:434744/1‑68                                                         ACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTG                   >  1:2627693/1‑68                                                         ACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTG                   >  1:692548/1‑68                                                         ACAAGACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTG                   >  1:3834818/1‑68                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              >  1:1133449/1‑68                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              <  1:527749/68‑1                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              <  1:795452/68‑1                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              >  1:1675404/1‑68                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              <  1:1741901/68‑1                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              <  1:2155111/68‑1                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              >  1:3591951/1‑68                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              <  1:2672148/68‑1                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              <  1:3053163/68‑1                                                              ACAATTGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGC              >  1:2760168/1‑68                                                                   TGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAAT         <  1:4239096/68‑1                                                                   TGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAAT         >  1:3521292/1‑68                                                                   TGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAAT         <  1:2349745/68‑1                                                                   TGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAAT         <  1:4682930/68‑1                                                                   TGGGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTGGGCTTAAT         >  1:4505052/1‑68                                                                   TGGGGCCATTTTGACTCATACAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAAT         >  1:963566/1‑68                                                                   TGGGCCCATTTTGACACATAGAGGAAAGCATCGCGGACAAACTTATTCAGTTTATTTGTTGGCTTAAT         <  1:3852509/68‑1                                                                     GGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATAT       <  1:4415064/68‑1                                                                     GGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATAT       <  1:2580524/68‑1                                                                     GGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATAT       <  1:3807866/68‑1                                                                     GGGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATAT       <  1:1308679/68‑1                                                                      GGCCATTTTGACTCATAGAGGAAAGCATCGCGGACATACTTTTTCAGTTTATTTGTTGGCTTAATATT      >  1:3015875/1‑68                                                                      GGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATc      >  1:3155275/1‑67                                                                      GGCCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATT      >  1:4054118/1‑68                                                                        CCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCT    <  1:67771/68‑1                                                                        CCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCT    >  1:2022918/1‑68                                                                        CCATTTTGACTCATAGAGGAAAGCATCGCGGACAAACATTTTCAGTTTATTTGTTGGCTTAATATTCT    <  1:4010927/68‑1                                                                          ATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTAT  <  1:4726468/68‑1                                                                          ATTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATCTGTTGGCTTAATATTCTAT  <  1:3498578/68‑1                                                                                                                                               AAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/4532434‑4532507 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ttggggccaTTTTGACTCATAGAGGAAAGCATCGCGGACAAACTTTTTCAGTTTATTTGTTGGCTTAATATTCTAT  <  CP009273/4532803‑4532737

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.