miRNA display CGI


Results 1 - 19 of 19 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
16127 3' -56.3 NC_004065.1 + 131236 0.66 0.928861
Target:  5'- uGUCGGGGUCucggucgucuccGugGCGGCGGacGUUCUg -3'
miRNA:   3'- -UAGUUCCGGu-----------CugCGCCGCU--CAAGAa -5'
16127 3' -56.3 NC_004065.1 + 31898 0.66 0.924632
Target:  5'- cUCGagagcGGGCCuGACGCGGCGcg-UCg- -3'
miRNA:   3'- uAGU-----UCCGGuCUGCGCCGCucaAGaa -5'
16127 3' -56.3 NC_004065.1 + 3965 0.66 0.924632
Target:  5'- gGUUAaacGGGUCAGugGCGGCuacuGUUCg- -3'
miRNA:   3'- -UAGU---UCCGGUCugCGCCGcu--CAAGaa -5'
16127 3' -56.3 NC_004065.1 + 22909 0.66 0.924632
Target:  5'- -aCGcGGUCAGugGCGGCGgucggcGGUUCc- -3'
miRNA:   3'- uaGUuCCGGUCugCGCCGC------UCAAGaa -5'
16127 3' -56.3 NC_004065.1 + 1261 0.66 0.924632
Target:  5'- cUgGAGGCCGGGCGUGuCGGuGUUCg- -3'
miRNA:   3'- uAgUUCCGGUCUGCGCcGCU-CAAGaa -5'
16127 3' -56.3 NC_004065.1 + 74600 0.66 0.907432
Target:  5'- cGUCGGuGG-CGGugGCGGCcGAGUUCc- -3'
miRNA:   3'- -UAGUU-CCgGUCugCGCCG-CUCAAGaa -5'
16127 3' -56.3 NC_004065.1 + 77840 0.67 0.901233
Target:  5'- -cCAGGcuCCGGACGCGGCGuGggCUc -3'
miRNA:   3'- uaGUUCc-GGUCUGCGCCGCuCaaGAa -5'
16127 3' -56.3 NC_004065.1 + 7321 0.67 0.901233
Target:  5'- gAUCGAGccggugguaCCGGACGCGGCGGagccGUUCg- -3'
miRNA:   3'- -UAGUUCc--------GGUCUGCGCCGCU----CAAGaa -5'
16127 3' -56.3 NC_004065.1 + 125597 0.68 0.866868
Target:  5'- cUCGuuGGCCGuGCGCGGCGGG-UCg- -3'
miRNA:   3'- uAGUu-CCGGUcUGCGCCGCUCaAGaa -5'
16127 3' -56.3 NC_004065.1 + 61198 0.68 0.851633
Target:  5'- ---uAGGCCAGGaccCGCGGCGAGg---- -3'
miRNA:   3'- uaguUCCGGUCU---GCGCCGCUCaagaa -5'
16127 3' -56.3 NC_004065.1 + 29295 0.68 0.843718
Target:  5'- cGUCGAGGuCCAcGACGgGGCG-GUUUUc -3'
miRNA:   3'- -UAGUUCC-GGU-CUGCgCCGCuCAAGAa -5'
16127 3' -56.3 NC_004065.1 + 94632 0.69 0.818865
Target:  5'- -aCGGGGUCGGGCGCGGCcGGcgCg- -3'
miRNA:   3'- uaGUUCCGGUCUGCGCCGcUCaaGaa -5'
16127 3' -56.3 NC_004065.1 + 127463 0.69 0.804982
Target:  5'- cGUCGAucuccccggggagguGGUCGGGCGCGGCGGGagCg- -3'
miRNA:   3'- -UAGUU---------------CCGGUCUGCGCCGCUCaaGaa -5'
16127 3' -56.3 NC_004065.1 + 163485 0.69 0.783428
Target:  5'- cGUCGgcGGcGCCGGugGCGGCGGcUUCa- -3'
miRNA:   3'- -UAGU--UC-CGGUCugCGCCGCUcAAGaa -5'
16127 3' -56.3 NC_004065.1 + 8750 0.7 0.764872
Target:  5'- --gGAGGCCguGGugGCGGCGgcagGGUUCa- -3'
miRNA:   3'- uagUUCCGG--UCugCGCCGC----UCAAGaa -5'
16127 3' -56.3 NC_004065.1 + 135126 0.7 0.745852
Target:  5'- cAUCAccGGG-CGGGCGCGGCGGGUg--- -3'
miRNA:   3'- -UAGU--UCCgGUCUGCGCCGCUCAagaa -5'
16127 3' -56.3 NC_004065.1 + 199038 0.7 0.726439
Target:  5'- cUCAGcGCCcGACGCGGCGAGcgCa- -3'
miRNA:   3'- uAGUUcCGGuCUGCGCCGCUCaaGaa -5'
16127 3' -56.3 NC_004065.1 + 163094 0.72 0.636135
Target:  5'- uUCu-GGCCAGGCGUaGCGGGUUCg- -3'
miRNA:   3'- uAGuuCCGGUCUGCGcCGCUCAAGaa -5'
16127 3' -56.3 NC_004065.1 + 135356 1.03 0.008242
Target:  5'- gAUCAAGGCCAGACGCGGCGAGUUCUUc -3'
miRNA:   3'- -UAGUUCCGGUCUGCGCCGCUCAAGAA- -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.