New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	4542664 =	34 (0.780)	6 (0.150)	6/268	4.7	16.9%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913_3_hsa_tpiA	4542978 =	27 (0.660)					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.

CGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAATTAAAACTCTGGCAATCGTTGTT  >  NC_000913_3_hsa_tpiA/4542830‑4543126                                                                                                                                                       |                                                                                                                                                      cGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCaaa                                                                                                                                                       <  2:373598/149‑1 (MQ=255)  gACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTTAAAATGGCCCCCAAt                                                                                                                                                      >  2:190939/1‑149 (MQ=255)     gCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGtt                                                                                                                                                   <  2:177556/149‑1 (MQ=255)             cTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCttt                                                                                                                                           >  1:56493/1‑149 (MQ=255)               cATTCTTCGCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAAAAA‑ATAAACTGAAACAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAAGGGCCCCAAATGTTTCATCTTTTg                                                                                                                                         <  2:68066/149‑1 (MQ=255)                         tcCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACt                                                                                                                               >  2:186577/1‑149 (MQ=255)                         tcCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACt                                                                                                                               >  1:75840/1‑149 (MQ=255)                                accaccTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGc                                                                                                                           >  2:266589/1‑146 (MQ=255)                                accaccTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGc                                                                                                                           <  1:266589/146‑1 (MQ=255)                                   accTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑tt                                                                                                                    >  2:96678/1‑149 (MQ=255)                                    ccTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTg                                                                                                                   <  1:516661/149‑1 (MQ=255)                                     cTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTTTATGAATCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTgg                                                                                                                  >  2:240498/1‑149 (MQ=255)                                              tataAACATCAATAAATAAAGATAACAATAGAATATTCAG‑AAACAAGATAAA‑TAAGGTCGTCAACTCCACGATGCTTTACTCTAAGAGGCATGATTGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAAc                                                                                                         <  2:721477/149‑1 (MQ=255)                                                                aaGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAgt                                                                                       <  1:134331/149‑1 (MQ=255)                                                                                   aaGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCAt                                                                    <  1:26545/149‑1 (MQ=255)                                                                                     gCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGt                                                                  >  1:321086/1‑149 (MQ=255)                                                                                       caacaa‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCg                                                                >  2:447938/1‑149 (MQ=255)                                                                                                    tGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAg                                                    <  1:96678/149‑1 (MQ=255)                                                                                                        aaaGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGtttt                                                >  1:658276/1‑149 (MQ=255)                                                                                                          aGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGtttttt                                              <  2:56493/149‑1 (MQ=255)                                                                                                               tGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTgaaa                                          <  2:321086/149‑1 (MQ=255)                                                                                                                        tGCTTTCCTCTATGAGTCAAAATGTCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTTGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAagcag                                 <  1:186577/149‑1 (MQ=255)                                                                                                                           tttCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGAAGTGATCGGATGCCCAAATCCCTT‑CATGTCGAAGTGTACAGCACTCCGGCGCATGTCGATTAAGAAATAGGTTTTTGAAAGGAAAgcagcag                              >  1:176919/1‑148 (MQ=255)                                                                                                                             tCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGa                            >  2:211694/1‑149 (MQ=255)                                                                                                                                 ctATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCACAAGCGGTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAAt                        >  1:705670/1‑149 (MQ=255)                                                                                                                                          aaaaTGGCCCCCAATCTTTCATCTTTTGGGGGAAAACTATGCCGTG‑TTGGCAGTCAACCTCGTTTACAAAACAAAGTGTACAATACGACTGCCCATGTCACTTTACAACTCATTTTTTGCAATGAAAGCAGCATGAAACTTAAAActct               >  2:69897/1‑149 (MQ=255)                                                                                                                                           aaaTGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAATTAAAACTCTg              <  2:417421/149‑1 (MQ=255)                                                                                                                                            tttGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAATTAAAACTCTgg             >  1:399969/3‑149 (MQ=255)                                                                                                                                                   ccAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTATACAGAACGACTACCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAGATTAAAACTTTTGCAATCgt      >  1:223472/1‑149 (MQ=255)                                                                                                                                                       aTGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAATTAAAACTCTGGCAATCgttgtt  <  1:447938/149‑1 (MQ=255)                                                                                                                                                       |                                                                                                                                                      CGACGCATCTTCCTCATTCTTCTCTCCAAAAACCACCTCATGCAATATAAACATCTATAAATAAAGATAACAATAGAATATTAAGCCAACAA‑ATAAACTGAAAAAGT‑TTGTCCGCGATGCTTTCCTCTATGAGTCAAAATGGCCCCAAATGTTTCATCTTTTGGGGGAAAACTGTGCAGTG‑TTGGCAGTCAAACTCGTTTACAAAACAAAGTGTACAGAACGACTGCCCATGTCGATTTAGAAATAGTTTTTTGAAAGGAAAGCAGCATGAAAATTAAAACTCTGGCAATCGTTGTT  >  NC_000913_3_hsa_tpiA/4542830‑4543126

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.