miRNA display CGI


Results 1 - 20 of 49 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
18435 3' -55.7 NC_004681.1 + 30676 1.11 0.000915
Target:  5'- gGUCAAGCUCGCCUUCCAUCACGGCCCu -3'
miRNA:   3'- -CAGUUCGAGCGGAAGGUAGUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 69385 0.79 0.158999
Target:  5'- -gCGAGCUCGUCcacgcggUCCAUCAgauCGGCCCa -3'
miRNA:   3'- caGUUCGAGCGGa------AGGUAGU---GCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 16727 0.79 0.167738
Target:  5'- -cCGGGCUgaugccCGCCgccUCCAUCGCGGCCUg -3'
miRNA:   3'- caGUUCGA------GCGGa--AGGUAGUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 41015 0.77 0.20179
Target:  5'- -gUggGCUUGCCaUCCAUCGCGGCa- -3'
miRNA:   3'- caGuuCGAGCGGaAGGUAGUGCCGgg -5'
18435 3' -55.7 NC_004681.1 + 65202 0.74 0.309816
Target:  5'- uUCAGGg-CGCCUUCCAUCAUugccaGGCCg -3'
miRNA:   3'- cAGUUCgaGCGGAAGGUAGUG-----CCGGg -5'
18435 3' -55.7 NC_004681.1 + 8629 0.74 0.316618
Target:  5'- -aCGAGCUgaGCCUcgcggaccugauuUCC-UCGCGGCCCg -3'
miRNA:   3'- caGUUCGAg-CGGA-------------AGGuAGUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 6921 0.74 0.325082
Target:  5'- uUCAGGCU-GUCg-CCGUCACGGUCCa -3'
miRNA:   3'- cAGUUCGAgCGGaaGGUAGUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 13255 0.74 0.3409
Target:  5'- cGUCAAGCUCGCCgaauUCCG-CGuccaGGCCa -3'
miRNA:   3'- -CAGUUCGAGCGGa---AGGUaGUg---CCGGg -5'
18435 3' -55.7 NC_004681.1 + 38534 0.73 0.349016
Target:  5'- uGUCGuucCUCGCucuCUUCC-UCGCGGCCCu -3'
miRNA:   3'- -CAGUuc-GAGCG---GAAGGuAGUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 13536 0.73 0.365655
Target:  5'- uUCAucGGCUCGCCgUUCuCAucgaacagcugcUCACGGUCCa -3'
miRNA:   3'- cAGU--UCGAGCGG-AAG-GU------------AGUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 43443 0.73 0.374179
Target:  5'- gGUUGAG-UCGUCauugUCCAUCACGGUCCc -3'
miRNA:   3'- -CAGUUCgAGCGGa---AGGUAGUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 60676 0.72 0.40868
Target:  5'- cGUCGAGCaccacguUCGUCggCCA--GCGGCCCg -3'
miRNA:   3'- -CAGUUCG-------AGCGGaaGGUagUGCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 503 0.72 0.428061
Target:  5'- cGUCAAGCUgGaCCcggCCAUCuuccGCGGCCg -3'
miRNA:   3'- -CAGUUCGAgC-GGaa-GGUAG----UGCCGGg -5'
18435 3' -55.7 NC_004681.1 + 53284 0.71 0.456666
Target:  5'- --gGAGCUCGUagucgUCCAaugUCGCGGCCa -3'
miRNA:   3'- cagUUCGAGCGga---AGGU---AGUGCCGGg -5'
18435 3' -55.7 NC_004681.1 + 3641 0.71 0.466428
Target:  5'- -gCAGGCcgcccUCGCCUUCgaCGUCGCcGCCCa -3'
miRNA:   3'- caGUUCG-----AGCGGAAG--GUAGUGcCGGG- -5'
18435 3' -55.7 NC_004681.1 + 32156 0.7 0.516748
Target:  5'- cUCGAGgaCGCCUUCCuugCGCugcuuGCCCa -3'
miRNA:   3'- cAGUUCgaGCGGAAGGua-GUGc----CGGG- -5'
18435 3' -55.7 NC_004681.1 + 16416 0.7 0.516748
Target:  5'- ----uGCUCGgCUUCCGUCGaucCGGCCg -3'
miRNA:   3'- caguuCGAGCgGAAGGUAGU---GCCGGg -5'
18435 3' -55.7 NC_004681.1 + 23666 0.7 0.537488
Target:  5'- aUCGAGCUgGCC-UCC--UACGcGCCCg -3'
miRNA:   3'- cAGUUCGAgCGGaAGGuaGUGC-CGGG- -5'
18435 3' -55.7 NC_004681.1 + 47119 0.7 0.547966
Target:  5'- gGUCGGGCUCGUCgguggggaUgGUCAgGGCCUg -3'
miRNA:   3'- -CAGUUCGAGCGGaa------GgUAGUgCCGGG- -5'
18435 3' -55.7 NC_004681.1 + 53718 0.69 0.569105
Target:  5'- cGUCGuuCUUgGCC-UCCGUCugGGCCUc -3'
miRNA:   3'- -CAGUucGAG-CGGaAGGUAGugCCGGG- -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.