New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	4532499 =	58 (0.930)	8 (0.140)	8/274	6.7	13.4%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	CP009273	4532813 =	49 (0.840)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTA  >  CP009273/4532351‑4532644                                                                                                                                                     |                                                                                                                                                  ccATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAt                                                                                                                                                   >  2:996028/1‑149 (MQ=255)    tACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTgg                                                                                                                                                >  1:877119/1‑149 (MQ=255)      cTGTGCGTTATACCGCCGGGAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGGTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTgggg                                                                                                                                              >  1:893768/1‑149 (MQ=255)       tgtgCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACAAAAAAATAAAAAGAGAAGAGGATTGTTTTGCCATCATCAGAAGAAAGAAAAGAAATGAAAGAAAGACAAGACAATTGGGGc                                                                                                                                             >  2:1010138/1‑149 (MQ=255)              tataCCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTg                                                                                                                                      >  2:947311/1‑149 (MQ=255)               ataCCGCCAGTATTGCTGCTCGTTTTGCCGGATGATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGTTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAATTTCAAGACAATTGGGGCCAAACTGt                                                                                                                                     <  1:480154/149‑1 (MQ=255)                 aCCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTcc                                                                                                                                   >  2:856959/1‑149 (MQ=255)                              ctgctTGTTTTGCCGGATTATGGGAAAGAAATAATGTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGCTTGAGGGGTTAAGAAACCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCataaataa                                                                                                                      <  2:404021/149‑1 (MQ=255)                              ctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCctaaataa                                                                                                                      >  1:44337/1‑149 (MQ=255)                              ctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCataaataa                                                                                                                      <  1:692213/149‑1 (MQ=255)                              ctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAATGTCCATATCattaataa                                                                                                                      >  1:109789/1‑149 (MQ=255)                               ttctagTTTTGCCGGATTATGAGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGATAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAg                                                                                                                     <  2:808310/144‑1 (MQ=255)                                          ccGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAtttt                                                                                                          >  2:679010/1‑149 (MQ=255)                                          ccGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTAtttt                                                                                                          >  1:986154/1‑149 (MQ=255)                                          ccGGATTAAGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATCGGGGCCAAACTGTCCCTATCATAAATAAGTTACATAtttt                                                                                                          >  1:248751/1‑149 (MQ=255)                                            ggATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTAAGTAtttttt                                                                                                        >  1:129311/1‑149 (MQ=255)                                                    ggAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCa                                                                                                >  1:480854/1‑149 (MQ=255)                                                        agaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaaa                                                                                            >  2:418797/1‑149 (MQ=255)                                                          aaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAATAATCAATGGAATACAAGACACTTGGGGCCAAACTGTCCATATCATAAATAAGTTACATATTTTTTATCAAGCATaaaaa                                                                                          >  1:253/1‑149 (MQ=255)                                                            ataatCACAAAAACAAAAAAATAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAata                                                                                        <  1:634440/149‑1 (MQ=255)                                                                 ctcATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaa                                                                                   <  2:599908/149‑1 (MQ=255)                                                                  tcAAAAACTAAAAATTAAAAAGAGAAGAGGTTTGATGTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATCCAAGACAATTGGGGCCAAACTGTCTATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaa                                                                                  <  1:553280/149‑1 (MQ=255)                                                                       aaCGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGa                                                                             <  2:9978/149‑1 (MQ=255)                                                                         cGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGAATTTTTTCTCAAGCATAAAAATATTAAAAAACGACa                                                                           >  2:1030994/1‑149 (MQ=255)                                                                          gAAAAATTAAAAAGAGAAGAGGATTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGTGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTTAAGCATAAAAATATTATAAAACGACaa                                                                          >  1:621576/1‑149 (MQ=255)                                                                                 tAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTATCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCAt                                                                   >  2:129047/1‑149 (MQ=255)                                                                                  aaaaaGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATc                                                                  <  2:393437/149‑1 (MQ=255)                                                                                  aaaaaGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATc                                                                  <  1:856959/149‑1 (MQ=255)                                                                                   aaaaGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCt                                                                 >  2:274554/1‑149 (MQ=255)                                                                                     aagagaagagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTaa                                                               <  2:519558/149‑1 (MQ=255)                                                                                        agaagagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAAAGAACAAAAGCATCTAACTg                                                            >  1:537107/1‑149 (MQ=255)                                                                                         gaagagGATTGATTTAACTTAATGATAATAAAATTAAAAAAACAAATAAATACAAGACAATTGGAGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACCGt                                                           >  1:288674/1‑149 (MQ=255)                                                                                           agagtattGATTTAACTTATCGATAATAAAGTTAAAAAAACAAATAAATACAGGACAATTGGGGCCAAACTGTCCATATCATAAAAAAGTTACGTATTCTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGttt                                                         <  1:788742/143‑1 (MQ=255)                                                                                           agagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCAGATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGttt                                                         <  1:390116/149‑1 (MQ=255)                                                                                               gTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGata                                                     >  1:863917/1‑149 (MQ=255)                                                                                                    cttaaaactATTGAGAATAAATATAAAAAAAAAAATAATGACAAGACAATTGGGGCCAAACACTCCATATCATAAATAACTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTaa                                                <  1:611498/141‑1 (MQ=255)                                                                                                      ttAACTTATTGATAATAAATTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAat                                              <  1:97161/149‑1 (MQ=255)                                                                                                           ttATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTAttt                                         >  2:950692/1‑149 (MQ=255)                                                                                                           ttATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTAttt                                         <  2:877119/149‑1 (MQ=255)                                                                                                            tATTGATAATAAAGTTAAAAAAAAAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATGTTGTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTc                                        <  2:505116/149‑1 (MQ=255)                                                                                                              ttGATAATAAAGTTAAAAAAACAAATAAATACAAGATAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGCATTTTTTCTCAAGCTTAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGTTATGTAAATTATTTCTa                                      <  1:796920/149‑1 (MQ=255)                                                                                                                    agaaattcaaaaacaCAAATAAATTCAAGCTAATTGGTGCCAAACTGTCCATACCATAAATAATTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTTTaa                                <  1:949809/141‑1 (MQ=255)                                                                                                                     taaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCAAAAATAAGTAACGAATTTTTTCACAAGCATAAAAAAAATAAAAAACGACAAAAAGCATCTAACTGTTAGAAATGTAAATTATTTCTATTGTaaa                               >  2:355277/1‑149 (MQ=255)                                                                                                                            aaaaaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTTTCATGCTTTAAAATATTAAAAAACGACAAAAAGCATCTGACTGTTTGATATGTTAATTATTTCTTTTTTCAATTAtttt                        >  1:789534/1‑149 (MQ=255)                                                                                                                             aaaaaaCAAATAAATCCAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTc                       <  1:235273/149‑1 (MQ=255)                                                                                                                              aaaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTACTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATTTAACCGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTcc                      >  1:57399/1‑148 (MQ=255)                                                                                                                              aaaaaCAAATAAATACAAGACAATTAGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATATAAATTATTTCAATAGTAAATTAATTTca                      >  1:483928/1‑149 (MQ=255)                                                                                                                               aaaaCAAATAAATACAGGACTATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTcac                     <  1:236385/149‑1 (MQ=255)                                                                                                                                  aCAAATAAATCCAAGACAATTGGGGCCAAATTGTCCATATAATAAATAAGTTTAGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGCTTAAATACCAAAGTATTTCTATTGTAAATTAATTTCACATc                  <  2:248751/149‑1 (MQ=255)                                                                                                                                         aataCAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTCTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCg           <  2:302239/149‑1 (MQ=255)                                                                                                                                          ataCAAGACAATTGGGGCCAAATTGTCCATATCATCTATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTATCTGTTTGATATGTAAATTATTTCTATTTTAAATTAATTTCACATCACCTCCGc          <  1:567069/149‑1 (MQ=255)                                                                                                                                          acaCAAGACAATTGGGGCCAAACTGTCCATATCATAACTAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGc          <  2:621576/147‑1 (MQ=255)                                                                                                                                              aaGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCtata      >  1:31799/1‑149 (MQ=255)                                                                                                                                              aaGACAATTATGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAACTTAATTTCACATCACCCCCGccaaa      >  1:178315/1‑145 (MQ=255)                                                                                                                                              aaGACAATGGGGGCCCAACTGTCCAACTCATAAATAAGTTACGTATTTTTTCTCAATCATAAAAATATTAAAAAAAAAAAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCtata      <  1:593969/149‑1 (MQ=255)                                                                                                                                               aGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCACTatat     >  2:992657/1‑149 (MQ=255)                                                                                                                                                gACAATTGGGGCCAAACTGTCCATACCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATg    >  2:615881/1‑149 (MQ=255)                                                                                                                                                  cAACTGGGGCCAAACTGTCCATTTCATAAAGAAGTTACGTATTTTTTCTCAAGAATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTa  <  1:299776/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                  CCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTA  >  CP009273/4532351‑4532644

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ 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.