New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 = 454269056 (1.290)4 (0.100) 4/266 5.6 6.9% intergenic (+57/‑425) fimE/fimA tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
?NC_000913 = 4542986 56 (1.380)intergenic (+353/‑129) 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.

GGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAATTAA  >  NC_000913/4542844‑4543125
                                                                                                                                              |                                                                                                                                           
ggCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCaaaa                                                                                                                                             <  2:147552/143‑1 (MQ=255)
  cTCGACGCATCTACCTCATTCTTCTCTCCAAAAACAACCTAAGGCAATATAAACATCTACAAGTAACGATGACGATAGAAAATTAAGCCACAAAATAAAATGAAAAAGCTAGACCGCGATACCATACTCTATAAGGCACAATg                                                                                                                                           >  2:50638/1‑143 (MQ=255)
   tccaCGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATgg                                                                                                                                          <  2:206140/140‑1 (MQ=255)
               ccTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGttt                                                                                                                              <  2:230468/143‑1 (MQ=255)
                cTCATTCTTCTCTCCAAAAACCACATAATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCACAAATGTTTc                                                                                                                             <  2:445760/143‑1 (MQ=255)
                    ttcttcTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAAAAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCt                                                                                                                         >  1:255281/1‑143 (MQ=255)
                         ctctcCAAAACCCACCGCATGCAATATAAACATCTCTAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGCAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTgg                                                                                                                    <  1:270669/143‑1 (MQ=255)
                          tctcCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTggg                                                                                                                   <  2:493531/143‑1 (MQ=255)
                          tctcCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAAGAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTggg                                                                                                                   >  2:30194/1‑143 (MQ=255)
                            tcCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACACTAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTCggggg                                                                                                                 >  2:731407/1‑143 (MQ=255)
                            tcCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTggggg                                                                                                                 >  1:559118/1‑143 (MQ=255)
                            tcCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTATCATCTTTTggggg                                                                                                                 >  2:629699/1‑143 (MQ=255)
                             ccAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGa                                                                                                                >  1:505397/1‑143 (MQ=255)
                              cAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGac                                                                                                               >  1:520766/1‑142 (MQ=255)
                               aaaaaCCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGaaa                                                                                                              <  1:27861/143‑1 (MQ=255)
                                 aaaCCACCTCATGCAATATAAACATCTATAAATAAAGATAACAACAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCGCCAAATGTTTCATCTTTTGGGGGAAAAc                                                                                                            >  1:651011/1‑143 (MQ=255)
                                 aaaCCACCTCATGCAATATAAACATCTATAAATAAAGATAACAACAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGaaacc                                                                                                            >  1:649306/1‑141 (MQ=255)
                                     caccTCATGCAAGATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACtgtg                                                                                                        <  1:578528/143‑1 (MQ=255)
                                          cATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAAAGGAAATATGTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCGgtg                                                                                                   >  1:111543/1‑143 (MQ=255)
                                              cAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAGATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTgg                                                                                               >  2:111490/1‑143 (MQ=255)
                                                 tataAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAg                                                                                            <  1:405105/143‑1 (MQ=255)
                                                    aaaCATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCa                                                                                         >  1:588482/1‑143 (MQ=255)
                                                     aaCATCTATAAATAAAGATAACAATAGCATATTAAGCCAACAAATAAACTGAAAAAGATTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCaa                                                                                        >  2:89003/1‑143 (MQ=255)
                                                       cATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAAc                                                                                      <  2:485478/143‑1 (MQ=255)
                                                        aTCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACt                                                                                     >  1:631152/1‑143 (MQ=255)
                                                            ataaataaAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGtt                                                                                 >  1:707154/1‑143 (MQ=255)
                                                            ataaataaAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGtt                                                                                 >  1:715564/1‑143 (MQ=255)
                                                             taaataaaGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGTTCTCCTCTATGAGTCAAAATGGCCCCAAACGTTTCATCTTTTGGGGGAAAACTGTGCAGCGTTGGCAGTCAAACTCGttt                                                                                >  2:121376/1‑143 (MQ=255)
                                                             taaataaaGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGttt                                                                                <  2:456868/143‑1 (MQ=255)
                                                                ataaaGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCTTTTGTTTCATGTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTaca                                                                             >  1:177619/1‑143 (MQ=255)
                                                                 taaaGATAACAATAGAATATTAAGCCAACAAATAAACTGAAACAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaa                                                                            >  1:315415/1‑143 (MQ=255)
                                                                      aTAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATTGCCCCAAATGTTTCATCTTTTGAGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaacaa                                                                       <  2:101507/143‑1 (MQ=255)
                                                                      aTAACAATAGAATATTAAGCCAACAAAGAAACTGACAAAGCTTGTCCGGGATGCTGTCCGCTACGGCACAAAAAATCCCCCAACAGCGGGTCGTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaacaa                                                                       <  2:348340/143‑1 (MQ=255)
                                                                       gacccaTAGAATATTAAGCCATCAAATAAACTGAAAACGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTacaaaacaaa                                                                      <  2:446595/138‑1 (MQ=255)
                                                                          cAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAgtg                                                                   <  1:614156/143‑1 (MQ=255)
                                                                           aaTAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAgtgt                                                                  >  1:163589/1‑143 (MQ=255)
                                                                             tAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTAc                                                                >  1:669911/1‑143 (MQ=255)
                                                                                aaTATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGa                                                             >  1:389188/1‑143 (MQ=255)
                                                                                aaTATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTCTACACCACAACGTGTACAGa                                                             >  2:714526/1‑143 (MQ=255)
                                                                                aaTATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATAAGTCAAAATAGCCGCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGAAGTCAAACTCGTTTACAAAAGAAAGTGTACAGa                                                             >  1:448513/1‑143 (MQ=255)
                                                                                    ttAAGCCAACAAATAAGCTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGa                                                         <  2:135642/143‑1 (MQ=255)
                                                                                          caacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTggg                                                                                                                   >  2:184727/1‑79 (MQ=255)
                                                                                          caacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTggg                                                                                                                   <  1:184727/79‑1 (MQ=255)
                                                                                          caacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGccc                                                   <  2:494421/143‑1 (MQ=255)
                                                                                           aacaaATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAACTGTTTCATCTTCTGGTAGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCa                                                  >  2:51213/1‑143 (MQ=255)
                                                                                                     cTGAAACAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGGACAGAACGACTGCCCATGTCGATTTa                                        <  1:184811/143‑1 (MQ=255)
                                                                                                          aaaGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCACCTGCCCTGGGGTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGCTTTAGAAAt                                   >  1:778988/1‑143 (MQ=255)
                                                                                                                  tCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGtttttt                           <  2:667061/143‑1 (MQ=255)
                                                                                                                   ccGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTg                          >  1:654142/1‑143 (MQ=255)
                                                                                                                      cgATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTGTTTgaaa                       >  2:35585/1‑143 (MQ=255)
                                                                                                                              tCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAagca               <  1:785286/143‑1 (MQ=255)
                                                                                                                              tCCTCTATGAGCCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAagca               <  1:376163/143‑1 (MQ=255)
                                                                                                                               ccTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAagcag              >  2:202263/1‑143 (MQ=255)
                                                                                                                                 tctATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAgcagca            <  1:586865/143‑1 (MQ=255)
                                                                                                                                   tATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATg          >  2:327748/1‑143 (MQ=255)
                                                                                                                                    gtGAGTCAAAATGGCCCCATATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGa         <  2:593392/142‑1 (MQ=255)
                                                                                                                                    aTGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGa         >  1:501960/1‑143 (MQ=255)
                                                                                                                                        gTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAACTAGTTTTTTGAAAGGAAAGCAGCATGAAAAt     >  2:254156/1‑143 (MQ=255)
                                                                                                                                           aaaaTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTGTTTTGAAAGGAAAGCAGCATGAAAATTaa  >  1:467250/1‑143 (MQ=255)
                                                                                                                                              |                                                                                                                                           
GGCTCGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAAATAAACTGAAAAAGTTTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTGTTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAATTAA  >  NC_000913/4542844‑4543125

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.