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Job UUID: eee0dfe6-ec40-48ae-9c0f-1bae4cd49fed
Name: Sample Results2
Description: Sample Results2
Job link:
Submission date: 2015-12-30 13:31:20
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Custom parameters

  • rnahybrid
    • -e: "-17", Energy threshold
    • -f: "2,8", Helix constraint
    • -v: "0", Maximal bulge loop size
  • guugle
    • -d: "15", Output only matches with length of at least x
  • targetalign
    • -maxmismatches: "4", Maximum number of mismatches
    • -sc: "45", Score threshold
    • -noMismatchesStart: "10", Start site with no mismatches
    • -maxGU: "6", Maximum number of G:U wobbles
    • -noMismatchesEnd: "11", End site with no mismatches
    • -maxConMismatches: "2", Maximum number of consecutive mismatches
    • -allowGU: "T", Allow G:U? [T/F]
    • -maxGap: "4", Maximum number of gaps
  • psrobot
    • -fp: "2", 5 prime boundary of essential sequence (1-2)
    • -ts: "2.5", Target penalty score, lower is better (0-5)
    • -tp: "17", 3 prime boundary of essential sequence (7-31)
    • -gn: "1", Number of gaps/bulges permitted (0-5)
    • -gl: "17", Position after which gap/bulge is permitted (0-30), 0 means no gap/bulge permitted
  • miranda
    • -en: "1.0", Energy threshold (-E kcal/mol)
    • -sc: "140.0", Score threshold
    • Basic Extended

    Basic and Extended are two different analysis modes. Basic mode denotes unique pairs of mRNA and miRNA, while Extended mode treats triplets (miRNA, mRNA, and position in given mRNA) unique.
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    Download Table
    CSV XLS XLSX
    # mRNA miRNA Number of
    Binding Sites    		 rnahybrid miranda targetalign psrobot guugle Total Number
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