miRNA display CGI


Results 1 - 20 of 40 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
22725 3' -40.6 NC_005091.1 + 48462 1.16 0.016511
Target:  5'- gGCGCUAUGACGGAAAAACGAAAAAACg -3'
miRNA:   3'- -CGCGAUACUGCCUUUUUGCUUUUUUG- -5'
22725 3' -40.6 NC_005091.1 + 48583 0.78 0.951546
Target:  5'- gGCGCgaAUGGCGGGAGGGCGc-AGAGCc -3'
miRNA:   3'- -CGCGa-UACUGCCUUUUUGCuuUUUUG- -5'
22725 3' -40.6 NC_005091.1 + 45104 0.77 0.964689
Target:  5'- uGCGCUGUcGcCGGAAGAGC-AGGAAACc -3'
miRNA:   3'- -CGCGAUA-CuGCCUUUUUGcUUUUUUG- -5'
22725 3' -40.6 NC_005091.1 + 33541 0.76 0.975105
Target:  5'- cGCGCgccucGGCGGAGAcuucCGAAAGAGCu -3'
miRNA:   3'- -CGCGaua--CUGCCUUUuu--GCUUUUUUG- -5'
22725 3' -40.6 NC_005091.1 + 53234 0.74 0.993102
Target:  5'- cGCGCUAcaGCGGAAucacGCGAGAcAGCg -3'
miRNA:   3'- -CGCGAUacUGCCUUuu--UGCUUUuUUG- -5'
22725 3' -40.6 NC_005091.1 + 1441 0.74 0.993102
Target:  5'- cGCGCUuccACGGGAAGaacGCGAAGAAGu -3'
miRNA:   3'- -CGCGAuacUGCCUUUU---UGCUUUUUUg -5'
22725 3' -40.6 NC_005091.1 + 40979 0.73 0.997645
Target:  5'- uGCGCUGcgcgccuccgaacUGAagGGGAAAACGGAGAcGCc -3'
miRNA:   3'- -CGCGAU-------------ACUg-CCUUUUUGCUUUUuUG- -5'
22725 3' -40.6 NC_005091.1 + 53272 0.73 0.997692
Target:  5'- cCGUaaAUGGCGGAAAGGCGAAAc--- -3'
miRNA:   3'- cGCGa-UACUGCCUUUUUGCUUUuuug -5'
22725 3' -40.6 NC_005091.1 + 22821 0.71 0.999227
Target:  5'- cGCGCUGacggccGGCGGcgGAACGAGcuGGAAUg -3'
miRNA:   3'- -CGCGAUa-----CUGCCuuUUUGCUU--UUUUG- -5'
22725 3' -40.6 NC_005091.1 + 58032 0.71 0.999227
Target:  5'- cGCGCUGaacGCGGAGAAuCGAccGGGCa -3'
miRNA:   3'- -CGCGAUac-UGCCUUUUuGCUuuUUUG- -5'
22725 3' -40.6 NC_005091.1 + 639 0.71 0.999227
Target:  5'- cGCGCUGaacGCGGAGAAuCGAccGGGCa -3'
miRNA:   3'- -CGCGAUac-UGCCUUUUuGCUuuUUUG- -5'
22725 3' -40.6 NC_005091.1 + 15225 0.71 0.999393
Target:  5'- gGCGCaacGGCGGAAcGACGAAGu--- -3'
miRNA:   3'- -CGCGauaCUGCCUUuUUGCUUUuuug -5'
22725 3' -40.6 NC_005091.1 + 3056 0.7 0.99972
Target:  5'- cGCGUgcUGACGGAGcagcucCGAAAAAGg -3'
miRNA:   3'- -CGCGauACUGCCUUuuu---GCUUUUUUg -5'
22725 3' -40.6 NC_005091.1 + 5495 0.7 0.999881
Target:  5'- cGCGCUGccgcaggaacUGACGGAAAucGCGuuu-AACc -3'
miRNA:   3'- -CGCGAU----------ACUGCCUUUu-UGCuuuuUUG- -5'
22725 3' -40.6 NC_005091.1 + 36490 0.69 0.999912
Target:  5'- cGUGCUGcGGCGGccggaucGAAGCGGAucAGCg -3'
miRNA:   3'- -CGCGAUaCUGCCu------UUUUGCUUuuUUG- -5'
22725 3' -40.6 NC_005091.1 + 57161 0.69 0.999954
Target:  5'- -gGCUGaGAUGGAAugGGGCGGcGAAGACg -3'
miRNA:   3'- cgCGAUaCUGCCUU--UUUGCU-UUUUUG- -5'
22725 3' -40.6 NC_005091.1 + 34107 0.68 0.999977
Target:  5'- cGCGUUgAUGACGGcguuuuGAAGCGAcauuuccuuGAAACg -3'
miRNA:   3'- -CGCGA-UACUGCCu-----UUUUGCUu--------UUUUG- -5'
22725 3' -40.6 NC_005091.1 + 48577 0.68 0.999989
Target:  5'- cGCGCcagccaGUGAcaCGGAGAcACGAucAAACg -3'
miRNA:   3'- -CGCGa-----UACU--GCCUUUuUGCUuuUUUG- -5'
22725 3' -40.6 NC_005091.1 + 28245 0.68 0.999989
Target:  5'- gGCGCUGUcaccgauuucGACGcGAAGACGAc-GGACg -3'
miRNA:   3'- -CGCGAUA----------CUGCcUUUUUGCUuuUUUG- -5'
22725 3' -40.6 NC_005091.1 + 16649 0.68 0.999989
Target:  5'- gGCGUgggGUacgcACGGAAAGACGggGgcuGGACu -3'
miRNA:   3'- -CGCGa--UAc---UGCCUUUUUGCuuU---UUUG- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.