New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_bme_pgi	4542683 =	54 (0.970)	5 (0.100)	5/268	7.1	8.6%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913_3_bme_pgi	4542997 =	56 (1.080)					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.

CCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATAT  >  NC_000913_3_bme_pgi/4542535‑4542825                                                                                                                                                     |                                                                                                                                               ccATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAAt                                                                                                                                                >  1:828423/1‑149 (MQ=255)    tACTGTGTGTTATACCCCCAGTAATGCAGCTCGTTTTGCCCGATTATGGGAAAGAAATAATCTCATAAACGAAAAAGTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTgg                                                                                                                                             <  1:240662/149‑1 (MQ=255)    tACTGTGCGTTATACCGCCAGTAATGGTGTTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAAATAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTgg                                                                                                                                             <  1:240695/149‑1 (MQ=255)     aCTGTGCGTTATACCGCCAGTATTGCTGCTCGTTTTGCCGGATTATGGGAAAGAAGTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTggg                                                                                                                                            <  1:738222/149‑1 (MQ=255)     aCTGTGCGTTATACCGCAAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTggg                                                                                                                                            <  1:956036/149‑1 (MQ=255)         tgCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAAAATTGGGGCCa                                                                                                                                        >  1:205741/1‑149 (MQ=255)           cGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCaaa                                                                                                                                      >  2:523317/1‑149 (MQ=255)                    gcgaGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCata                                                                                                                             >  1:246479/4‑149 (MQ=255)                      cAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGAGCAAAACTGTCCATATc                                                                                                                           >  2:410611/1‑149 (MQ=255)                        gTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCat                                                                                                                         <  1:827988/149‑1 (MQ=255)                         tAATGCTGCTCGTTTTGCAGGAATATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCata                                                                                                                        <  2:397172/149‑1 (MQ=255)                           aTGCTGCTCGTTTTGACGGATTATGGGAAAGAAATAATCAAATAAAAGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCataaa                                                                                                                      <  2:544596/149‑1 (MQ=255)                              ctgatCGTTTTGCCAAATGATAGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTAATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTTTCCATATCataaataa                                                                                                                   <  2:824242/149‑1 (MQ=255)                                gttCGTTTGTCCGAATTATGGGAAAGAAATAATCTCATAAACGAAAAAGTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGt                                                                                                                 <  1:595707/147‑1 (MQ=255)                                 ctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGAGGCCAAACTGTCCATATCATAAATAAGtt                                                                                                                >  1:514840/1‑149 (MQ=255)                                                 aTGGGAAAGAAATAAGATCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCaa                                                                                                <  2:350796/149‑1 (MQ=255)                                                   gggAAAGAAATAATCTCATAAACGAAACATTAAAAAGAGAAGAGATTTGATTTAACTTATTGATAAAAAAGTTAAAAAAACAAATAAGTACAAGACAATTTGGGCCAAACTGTCCATATCATAAATAAGTAACGTATTTTTTTTCATGc                                                                                              >  2:939/1‑149 (MQ=255)                                                   gggAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGCTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGTCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCaaac                                                                                              >  2:342471/1‑147 (MQ=255)                                                     gaaagaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGATTGCTTTAACGTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCCTAAATAAGTAACGTATTTTTTTTGAAGctt                                                                                            >  1:702279/1‑147 (MQ=255)                                                      aaagaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATa                                                                                           >  1:11848/1‑149 (MQ=255)                                                      aaagaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTCTCAATATCATAAATAAGTTACGTATTTTTTCTCACGCAtc                                                                                           >  1:760165/1‑148 (MQ=255)                                                        agaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTACCTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCACACTGTCTATATCATAAATCAGTTACGTCTTTTTTCTCAAGCATaaa                                                                                         <  2:509345/149‑1 (MQ=255)                                                          aaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAGTACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaaaaa                                                                                       >  1:384897/1‑149 (MQ=255)                                                          aaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAATAACGTATTTTTTCTCAAGCATaaaaa                                                                                       >  2:707511/1‑149 (MQ=255)                                                           aataatCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAat                                                                                      <  1:421776/149‑1 (MQ=255)                                                                 ctcATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGAGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaa                                                                                >  2:608489/1‑149 (MQ=255)                                                                   cATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAACAACAAATAAAGACAAGACAATTGCGGCAAACCTGGTAAGAACAGAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTaaaaa                                                                              >  2:717741/1‑149 (MQ=255)                                                                     tAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAAc                                                                            >  1:568684/1‑149 (MQ=255)                                                                         cGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTTTCAAGCATAAAAATATTAAAAAACGACa                                                                        >  1:419961/1‑149 (MQ=255)                                                                           aaaaaTTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAGTACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACaaa                                                                      <  2:384897/149‑1 (MQ=255)                                                                                ttAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCa                                                                 >  1:462243/1‑149 (MQ=255)                                                                                ttAAAAAGACAAGAGATTTTATTTAACTTATTGATAATAAAGTTAAAAAACCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCa                                                                 <  1:584494/149‑1 (MQ=255)                                                                                          aaggagTTTGATCTAAGTTATGGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGtt                                                       <  1:633048/144‑1 (MQ=255)                                                                                          aagagGTTTGATTTAACTTATTGAGAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGtt                                                       <  1:838000/149‑1 (MQ=255)                                                                                          aagagGTGTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGtt                                                       <  1:523317/149‑1 (MQ=255)                                                                                           agagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGttt                                                      <  2:11848/149‑1 (MQ=255)                                                                                           agagGGTTGATGTAACCTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATTATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGATAAACAGCATCTAACTGttt                                                      <  2:830335/149‑1 (MQ=255)                                                                                             aagTTTGATAAAAATTAATGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTAAAGCATAAAAACATTAAAAAACGACATAAAGCATCTAACTGTTTGa                                                    <  2:235715/147‑1 (MQ=255)                                                                                                    aTTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCAATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTCTTTGATATGTaa                                             >  2:645647/1‑149 (MQ=255)                                                                                                       tAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTa                                                                                                               <  2:300974/80‑1 (MQ=255)                                                                                                       tAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTa                                                                                                               >  1:300974/1‑80 (MQ=255)                                                                                                        aaCTTAATGATAATAAAGTTAAAAAAACAAATAAATACAATACAATTGCGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTTTCAAGCCTAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAatta                                         <  2:706284/149‑1 (MQ=255)                                                                                                              gtGAAAATAAAATGAAAAAAAAAAATAAATAAAAGAGAATTGGGGCCAAACTGTCCATATGATAAAAAAGTTAGGTATTTTTCCTCAAGCATAAAAAAATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTa                                   <  2:661625/148‑1 (MQ=255)                                                                                                              atGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTa                                   <  1:309065/148‑1 (MQ=255)                                                                                                                     taaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTaaa                            <  1:545070/149‑1 (MQ=255)                                                                                                                     taaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACAGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCAAACTGTTTGATATGTAAATTATTTCTATTGTaaa                            <  2:798985/149‑1 (MQ=255)                                                                                                                     taaAGGTAAAAAAATAAATAAATACAAGACAATCTGGCACAAACTTGCAATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTaaa                            <  1:969621/149‑1 (MQ=255)                                                                                                                     taaAATTAAAAAAACAAATAAATACAAGTCAATTTGGGACAAAATTTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTaaa                            <  2:887265/149‑1 (MQ=255)                                                                                                                         gTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAaattaa                        >  1:594063/1‑149 (MQ=255)                                                                                                                          ttAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAaattaat                       <  1:219698/149‑1 (MQ=255)                                                                                                                                        aaataCAAGACAATTGGGGCCAATCTGTCCATAACATAAATAAGCTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTcc         <  1:939/149‑1 (MQ=255)                                                                                                                                         aataCAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAGTTTTTTCTATTGTAAATTAATTTCACATCACCTCCg        <  2:972728/149‑1 (MQ=255)                                                                                                                                          attcAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGc       <  1:599320/146‑1 (MQ=255)                                                                                                                                              aaGACGATTGGGGACAAACCGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACAAAAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCtata   <  2:587786/149‑1 (MQ=255)                                                                                                                                               aaaCATTTGGAGCCAAAGTGTACATATCACAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTatat  <  1:331210/147‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                               CCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATAT  >  NC_000913_3_bme_pgi/4542535‑4542825

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.