miRNA display CGI


Results 1 - 20 of 24 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
20456 5' -57.9 NC_004688.1 + 27780 0.66 0.78261
Target:  5'- cGUgUAGggccCGCCCGACuCCccGUCGACa -3'
miRNA:   3'- -CAgGUCa---GCGGGCUGcGGuuCAGCUG- -5'
20456 5' -57.9 NC_004688.1 + 87251 0.66 0.763769
Target:  5'- cUCCAGgccccccCGCCC-ACGCCAGggcGUCGGa -3'
miRNA:   3'- cAGGUCa------GCGGGcUGCGGUU---CAGCUg -5'
20456 5' -57.9 NC_004688.1 + 6418 0.66 0.763769
Target:  5'- -gCCAGUCa-CCGAUGCCGAGgCGGu -3'
miRNA:   3'- caGGUCAGcgGGCUGCGGUUCaGCUg -5'
20456 5' -57.9 NC_004688.1 + 108582 0.66 0.758022
Target:  5'- aUCCGGcgCGCgcaaggguuacucgaCCG-CGCCGAGUCGGa -3'
miRNA:   3'- cAGGUCa-GCG---------------GGCuGCGGUUCAGCUg -5'
20456 5' -57.9 NC_004688.1 + 41177 0.66 0.754167
Target:  5'- aUCCAGguuguggaCGCCCGGCaGCUu-GUCGAg -3'
miRNA:   3'- cAGGUCa-------GCGGGCUG-CGGuuCAGCUg -5'
20456 5' -57.9 NC_004688.1 + 14416 0.66 0.754167
Target:  5'- --aCGGUCGCCgGACGCUuccacacucAGUcCGGCg -3'
miRNA:   3'- cagGUCAGCGGgCUGCGGu--------UCA-GCUG- -5'
20456 5' -57.9 NC_004688.1 + 91031 0.66 0.754167
Target:  5'- gGUCUggacGUCGCCCcACGCCAccaCGACa -3'
miRNA:   3'- -CAGGu---CAGCGGGcUGCGGUucaGCUG- -5'
20456 5' -57.9 NC_004688.1 + 11200 0.66 0.744455
Target:  5'- uUCCGGU-GCCCaGCGU--GGUCGGCa -3'
miRNA:   3'- cAGGUCAgCGGGcUGCGguUCAGCUG- -5'
20456 5' -57.9 NC_004688.1 + 63328 0.67 0.734644
Target:  5'- --aCGGgcgCGcCCCGGCGCCAcgcGUCGAg -3'
miRNA:   3'- cagGUCa--GC-GGGCUGCGGUu--CAGCUg -5'
20456 5' -57.9 NC_004688.1 + 33640 0.67 0.724743
Target:  5'- -aCCAGgacCGCCC-ACGCCGccagcgcccgGGUCGAg -3'
miRNA:   3'- caGGUCa--GCGGGcUGCGGU----------UCAGCUg -5'
20456 5' -57.9 NC_004688.1 + 18261 0.67 0.714761
Target:  5'- gGUCCAcGagGCCCGACcaGCgCAuGUUGACa -3'
miRNA:   3'- -CAGGU-CagCGGGCUG--CG-GUuCAGCUG- -5'
20456 5' -57.9 NC_004688.1 + 78831 0.67 0.704708
Target:  5'- -aCCAGUCGgCCGGCaa-GGGUUGACu -3'
miRNA:   3'- caGGUCAGCgGGCUGcggUUCAGCUG- -5'
20456 5' -57.9 NC_004688.1 + 5514 0.67 0.704708
Target:  5'- aUCUGGUgGCCCguGACGCCGccGUCGGa -3'
miRNA:   3'- cAGGUCAgCGGG--CUGCGGUu-CAGCUg -5'
20456 5' -57.9 NC_004688.1 + 41930 0.67 0.704708
Target:  5'- -cCCGGUUGCCCGGCcagaacggaucGCgGuAGUUGGCg -3'
miRNA:   3'- caGGUCAGCGGGCUG-----------CGgU-UCAGCUG- -5'
20456 5' -57.9 NC_004688.1 + 56751 0.67 0.704708
Target:  5'- aGUCCAGgcauccUCGUCaaaGAUGCCGA-UCGACu -3'
miRNA:   3'- -CAGGUC------AGCGGg--CUGCGGUUcAGCUG- -5'
20456 5' -57.9 NC_004688.1 + 101195 0.68 0.674211
Target:  5'- -gCCGGaacUGUCCGAgGCCGAGUUGAa -3'
miRNA:   3'- caGGUCa--GCGGGCUgCGGUUCAGCUg -5'
20456 5' -57.9 NC_004688.1 + 65893 0.68 0.661911
Target:  5'- cUCCGGUgggucuuuaaggGCCCcGCGCCAAGUCGcgGCg -3'
miRNA:   3'- cAGGUCAg-----------CGGGcUGCGGUUCAGC--UG- -5'
20456 5' -57.9 NC_004688.1 + 81284 0.68 0.622801
Target:  5'- -cCCucGUCGuuguaCCCGGCGUCAGGUCGGg -3'
miRNA:   3'- caGGu-CAGC-----GGGCUGCGGUUCAGCUg -5'
20456 5' -57.9 NC_004688.1 + 87639 0.7 0.521387
Target:  5'- -gUCGGUCgGCCCGcGCGCCAcccGUCGAUc -3'
miRNA:   3'- caGGUCAG-CGGGC-UGCGGUu--CAGCUG- -5'
20456 5' -57.9 NC_004688.1 + 39883 0.71 0.49211
Target:  5'- gGUCCAGUcggCGCCUGcucCGCCGGGUCcgguGGCg -3'
miRNA:   3'- -CAGGUCA---GCGGGCu--GCGGUUCAG----CUG- -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.