miRNA display CGI


Results 1 - 20 of 25 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
18766 3' -55.4 NC_004683.1 + 18310 0.66 0.756635
Target:  5'- cCGaCAaUCUUGCCCGUG--GGCGAGu- -3'
miRNA:   3'- -GC-GUaAGAACGGGCGCagCCGCUUgc -5'
18766 3' -55.4 NC_004683.1 + 30049 0.66 0.746387
Target:  5'- uGCA--CUUGUCCGCaUCGGaucuGGACGg -3'
miRNA:   3'- gCGUaaGAACGGGCGcAGCCg---CUUGC- -5'
18766 3' -55.4 NC_004683.1 + 52609 0.67 0.693666
Target:  5'- gGCAUUcCUUGgCCGCcucGUCGGCc-GCGa -3'
miRNA:   3'- gCGUAA-GAACgGGCG---CAGCCGcuUGC- -5'
18766 3' -55.4 NC_004683.1 + 1955 0.67 0.682904
Target:  5'- gCGCA-UCUUGCCUGCGgucaccgaaUCGGCcagaggcuucGAGCc -3'
miRNA:   3'- -GCGUaAGAACGGGCGC---------AGCCG----------CUUGc -5'
18766 3' -55.4 NC_004683.1 + 33929 0.67 0.682904
Target:  5'- cCGUcUUCgcgGgCCGCGUCGGCuGGAuCGg -3'
miRNA:   3'- -GCGuAAGaa-CgGGCGCAGCCG-CUU-GC- -5'
18766 3' -55.4 NC_004683.1 + 31198 0.67 0.682904
Target:  5'- gCGCGUUCUcacgaacacacUGCCCccgcGgGUgGGCaGAGCGa -3'
miRNA:   3'- -GCGUAAGA-----------ACGGG----CgCAgCCG-CUUGC- -5'
18766 3' -55.4 NC_004683.1 + 52726 0.67 0.672094
Target:  5'- uGCGUUCggcGCguuCCuCGUCGGUGAACa -3'
miRNA:   3'- gCGUAAGaa-CG---GGcGCAGCCGCUUGc -5'
18766 3' -55.4 NC_004683.1 + 49063 0.67 0.672094
Target:  5'- uCGCGgcgg-GCCCGCGguacuuucCGGCGAuguuGCGg -3'
miRNA:   3'- -GCGUaagaaCGGGCGCa-------GCCGCU----UGC- -5'
18766 3' -55.4 NC_004683.1 + 7840 0.67 0.661247
Target:  5'- uGC-UUCUUGUCUGCGcCGGUgccGAACu -3'
miRNA:   3'- gCGuAAGAACGGGCGCaGCCG---CUUGc -5'
18766 3' -55.4 NC_004683.1 + 21934 0.67 0.650373
Target:  5'- gGCAaUCc-GCCCgGCGgUGGCGGGCGg -3'
miRNA:   3'- gCGUaAGaaCGGG-CGCaGCCGCUUGC- -5'
18766 3' -55.4 NC_004683.1 + 39516 0.67 0.650373
Target:  5'- gGCGaggUCcUGgCCGCGagGGCGAAUGu -3'
miRNA:   3'- gCGUa--AGaACgGGCGCagCCGCUUGC- -5'
18766 3' -55.4 NC_004683.1 + 5827 0.67 0.650373
Target:  5'- gGCGgcggUGCCCGCGagcgCGGUGA-CGa -3'
miRNA:   3'- gCGUaagaACGGGCGCa---GCCGCUuGC- -5'
18766 3' -55.4 NC_004683.1 + 27160 0.68 0.639483
Target:  5'- uGCGcUCgUUGCCCGacuuGUCGGUGuaGACGa -3'
miRNA:   3'- gCGUaAG-AACGGGCg---CAGCCGC--UUGC- -5'
18766 3' -55.4 NC_004683.1 + 34011 0.68 0.617692
Target:  5'- gGCGUUCa-GCuuGCGUCaGCGuGCGa -3'
miRNA:   3'- gCGUAAGaaCGggCGCAGcCGCuUGC- -5'
18766 3' -55.4 NC_004683.1 + 13681 0.68 0.611162
Target:  5'- gGCGagCUgGCCCGCauagccgaucgcgcgGUUGGCGAGCu -3'
miRNA:   3'- gCGUaaGAaCGGGCG---------------CAGCCGCUUGc -5'
18766 3' -55.4 NC_004683.1 + 7668 0.68 0.603551
Target:  5'- aGuCGUUgaUGCCCGCGUCGaccucggccgaguuGCGAAUa -3'
miRNA:   3'- gC-GUAAgaACGGGCGCAGC--------------CGCUUGc -5'
18766 3' -55.4 NC_004683.1 + 12218 0.7 0.521221
Target:  5'- gGCcgaaUCggcccUGCCUGCGUCGGCGAccuGCu -3'
miRNA:   3'- gCGua--AGa----ACGGGCGCAGCCGCU---UGc -5'
18766 3' -55.4 NC_004683.1 + 41286 0.71 0.440729
Target:  5'- gGCGUccUCggcgGCcuucgCCGCGUCGGCGggUGu -3'
miRNA:   3'- gCGUA--AGaa--CG-----GGCGCAGCCGCuuGC- -5'
18766 3' -55.4 NC_004683.1 + 3370 0.72 0.39415
Target:  5'- uGCcgUCg-GCCagGCGUCGGCGGGCc -3'
miRNA:   3'- gCGuaAGaaCGGg-CGCAGCCGCUUGc -5'
18766 3' -55.4 NC_004683.1 + 56318 0.72 0.367776
Target:  5'- gCGCGUUCUcgaugucggguUGCCaGCGUCGGgGAuacugGCGg -3'
miRNA:   3'- -GCGUAAGA-----------ACGGgCGCAGCCgCU-----UGC- -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.