New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 4542690	56 (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.

ACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGC  >  NC_000913/4542550‑4542831                                                                                                                                              |                                                                                                                                               cgcgcgAGTAATGCGGATCGTTTTGACGAATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTATGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCaaa                                                                                                                                              <  2:452669/141‑1 (MQ=255)   cGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACt                                                                                                                                            >  2:111361/1‑143 (MQ=255)   cGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACt                                                                                                                                            >  2:568249/1‑143 (MQ=255)           aTGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAACAAGGATAGGGCAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAAGACAAGCCAATTGGGGCCAAACGGTCCatat                                                                                                                                    >  1:72234/1‑143 (MQ=255)              ctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑Cat                                                                                                                                <  1:386301/143‑1 (MQ=255)              ctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGAGAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑Cat                                                                                                                                >  2:316015/1‑143 (MQ=255)              ctgctCGATTGGCCGGATTACGGGAAAAAAAGAATAGTATAAACGAAAAATTAAATAGAGCAGAATTAGAAT‑TGAAATTATCGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑Cat                                                                                                                                <  2:274154/143‑1 (MQ=255)               tgaccGTTTTGCCGAATTACAGAAAAGAAATGATCTCAAAAAAGAAAAAATAAAAAGAGAAGAAGCTTGAT‑TTAACCTATTGATAAGAAAGTTAAAAAAACAAATAAATACAATACAATTGGGGCCAAATTGTCCATAT‑Cata                                                                                                                               <  2:501104/139‑1 (MQ=255)                 ctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGACAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑Cataac                                                                                                                             >  2:297115/1‑142 (MQ=255)                            ggATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATCAGTTACGTa                                                                                                                  >  2:245439/1‑143 (MQ=255)                             gATTATGGGAGCGAAATAATCTCATAAACGAAACATTAAAAAGAGAAGAGGTATGAT‑TTAACTTATTCATAATAAAGTTAAAAAAACAAATAAATACAAAACAAATGGGGCCAAATTATCCATAT‑CATAAATAAGATACGTAt                                                                                                                 >  2:682239/1‑143 (MQ=255)                                    ggAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTtct                                                                                                          >  1:576393/1‑143 (MQ=255)                                      aaagaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACGAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCa                                                                                                        >  1:446595/1‑143 (MQ=255)                                       cagaaaTACGCTCATAAACGAAAAATGAAAAAGAGAAGAGGTGTGAT‑TTAACTTATTCATAATAAAGTTAAAAAAACAAATAAAGACACGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCaa                                                                                                       <  2:323478/142‑1 (MQ=255)                                         gaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGc                                                                                                     >  1:362604/1‑143 (MQ=255)                                                    aTAAGCAAAAAATTAAAAAGAGAAGAAGTTAGATCCGTACTT‑GAGAAGGTAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATAtt                                                                                          <  2:553089/143‑1 (MQ=255)                                                     tAAACGAAAAATTAAAAAGATAAGAGGTATGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTa                                                                                         <  1:691598/143‑1 (MQ=255)                                                       aaagAAAAATAAAAAAGAAAAGAGGTTTAAG‑TTAACAAAATGATAATAAAATTAAAAAAAAAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaa                                                                                       <  2:540627/140‑1 (MQ=255)                                                         cGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATACGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaa                                                                                     >  2:405105/1‑143 (MQ=255)                                                          gAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAAACAATAAAAACCAGGCAAATGGGGGCAAACCTTCCAAATCCTTAAATAGGTT‑CGTTTTTTTTCTTAAGGATTAAAATTTTtaaaaa                                                                                    >  1:372964/1‑143 (MQ=255)                                                          gAAAAATTAAAAAGAGAAGAGGTATGAT‑TTAACTTATTGATAAAAAAGAAAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaaa                                                                                    <  2:248819/143‑1 (MQ=255)                                                               aTTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACa                                                                               >  1:453745/1‑143 (MQ=255)                                                                   aaaaGAGAAGAGATTTGAT‑TTAACTTATTGATAATAAAATTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACaaaaa                                                                           <  2:70369/143‑1 (MQ=255)                                                                        agaagaaGTTTTAT‑TTAACTTATAGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATc                                                                      <  2:555395/143‑1 (MQ=255)                                                                                tttGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGtt                                                              <  2:421115/143‑1 (MQ=255)                                                                                tttGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGtt                                                              <  1:747727/143‑1 (MQ=255)                                                                                 ttGAT‑TTAACTTATTGCTAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGACCATAT‑CAAAAATAAGTTACGTATGTTTCATTAAGCATAAAAATATTAAAAAACCAAGAAAAACATCTAACTGctt                                                             >  2:270669/1‑143 (MQ=255)                                                                                    aT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGat                                                          >  1:524286/1‑143 (MQ=255)                                                                                       ttAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGatat                                                        >  2:614156/1‑143 (MQ=255)                                                                                        tAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATg                                                       >  1:298282/1‑143 (MQ=255)                                                                                            ttATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAACATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTaaa                                                   >  1:101507/1‑143 (MQ=255)                                                                                            ttATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTaac                                                   >  1:135642/1‑142 (MQ=255)                                                                                              aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTACATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAatt                                                 >  2:481025/1‑143 (MQ=255)                                                                                                   taataaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAACTTATTTc                                            >  1:147552/1‑143 (MQ=255)                                                                                                       aaaGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTAtt                                        <  1:731635/143‑1 (MQ=255)                                                                                                          gTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTa                                     <  1:19742/143‑1 (MQ=255)                                                                                                           ttAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGtca                                    >  1:445760/1‑141 (MQ=255)                                                                                                             aaaaaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAaat                                  >  1:230468/1‑143 (MQ=255)                                                                                                                aaaaCAAATAAATACAAGACAATTGAGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACTACAAAAAGCATCTAACTGATTGATATGTAAATTATTTCTATTGTAaattaa                               <  2:411210/143‑1 (MQ=255)                                                                                                                   aCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAAttt                            <  2:89663/143‑1 (MQ=255)                                                                                                                     aaataaatACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTca                          >  2:543105/1‑143 (MQ=255)                                                                                                                     aaataaatACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTca                          <  2:72234/143‑1 (MQ=255)                                                                                                                      aaaaaataCAAGACAATGGGGGGCAAGCTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTcac                         <  1:322641/140‑1 (MQ=255)                                                                                                                       ataaataCAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTaaa                                   >  2:534045/1‑132 (MQ=255)                                                                                                                       ataaataCAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTaaa                                   <  1:534045/132‑1 (MQ=255)                                                                                                                                 gACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCAt                                                                       >  2:355179/1‑86 (MQ=255)                                                                                                                                 gACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCAt                                                                       <  1:355179/86‑1 (MQ=255)                                                                                                                                 gACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTAATATGTAAATTATTTATATTCTAAATTAATTTCACCTCACCTcctc              >  2:184811/1‑141 (MQ=255)                                                                                                                                    aaTTGTGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCtat           <  2:260019/143‑1 (MQ=255)                                                                                                                                     aTTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCtata          <  2:762249/143‑1 (MQ=255)                                                                                                                                     aTTGGAGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCtata          <  1:117600/143‑1 (MQ=255)                                                                                                                                      ttGAGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTatat         <  1:203059/143‑1 (MQ=255)                                                                                                                                      tagaggCCAAACTGTCAATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTatat         <  2:294488/139‑1 (MQ=255)                                                                                                                                           ggcAAACGGTCCATAT‑AATAAATAAGTTACGTAATTGTTCTTAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTAGTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTaaa    <  2:552721/141‑1 (MQ=255)                                                                                                                                           gCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTaaa    >  1:692789/1‑143 (MQ=255)                                                                                                                                             cAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGc  <  1:316015/143‑1 (MQ=255)                                                                                                                                              |                                                                                                                                               ACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGAT‑TTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATAT‑CATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGC  >  NC_000913/4542550‑4542831

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.