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
18385 3' -57.6 NC_004681.1 + 12572 1.09 0.00092
Target:  5'- cGUGCCCGGGUCAAACACCUUCCCGGGc -3'
miRNA:   3'- -CACGGGCCCAGUUUGUGGAAGGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 19362 0.75 0.252317
Target:  5'- -cGaCCGGGUCGAccACACCggCCUGGGc -3'
miRNA:   3'- caCgGGCCCAGUU--UGUGGaaGGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 9597 0.74 0.27824
Target:  5'- -cGuCCCGGGaUCAAcUACCUaCCCGGGc -3'
miRNA:   3'- caC-GGGCCC-AGUUuGUGGAaGGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 28594 0.72 0.376935
Target:  5'- gGUGCCCGGGgugagugUGAGC-CCagcCCCGGGc -3'
miRNA:   3'- -CACGGGCCCa------GUUUGuGGaa-GGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 40123 0.7 0.467383
Target:  5'- -cGCCa-GGUCGGugACCg-CCCGGGa -3'
miRNA:   3'- caCGGgcCCAGUUugUGGaaGGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 9700 0.7 0.467383
Target:  5'- -cGCCCGGG-UAggUAgUUgaUCCCGGGa -3'
miRNA:   3'- caCGGGCCCaGUuuGUgGA--AGGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 58815 0.7 0.467383
Target:  5'- -cGCCCGGGUCGAAuuCGCCca-UCGGa -3'
miRNA:   3'- caCGGGCCCAGUUU--GUGGaagGGCCc -5'
18385 3' -57.6 NC_004681.1 + 28485 0.7 0.47704
Target:  5'- -cGCCCGGGgcugggCucACACUcacCCCGGGc -3'
miRNA:   3'- caCGGGCCCa-----GuuUGUGGaa-GGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 39973 0.69 0.486795
Target:  5'- -gGCgCCGGGUCAAcuCACCggCUCGGc -3'
miRNA:   3'- caCG-GGCCCAGUUu-GUGGaaGGGCCc -5'
18385 3' -57.6 NC_004681.1 + 21536 0.69 0.486795
Target:  5'- uUGCCgGGGUUGAggaacggcgccaGCACCUUgCCCaGGa -3'
miRNA:   3'- cACGGgCCCAGUU------------UGUGGAA-GGGcCC- -5'
18385 3' -57.6 NC_004681.1 + 56318 0.69 0.536875
Target:  5'- -cGCUCGGGUC-GACGCCggUCCaGGc -3'
miRNA:   3'- caCGGGCCCAGuUUGUGGaaGGGcCC- -5'
18385 3' -57.6 NC_004681.1 + 58908 0.69 0.536875
Target:  5'- cUGUCCGGGUgAGGC-CCagcaacUCCUGGGc -3'
miRNA:   3'- cACGGGCCCAgUUUGuGGa-----AGGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 24714 0.68 0.567771
Target:  5'- cGUGCCaUGGGUCGgcaucgcagucGACACCggcaaCGGGg -3'
miRNA:   3'- -CACGG-GCCCAGU-----------UUGUGGaagg-GCCC- -5'
18385 3' -57.6 NC_004681.1 + 44475 0.68 0.576091
Target:  5'- uUGCCCGGa-CGGGCGCCcguagggucaggUCUCGGGg -3'
miRNA:   3'- cACGGGCCcaGUUUGUGGa-----------AGGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 32276 0.68 0.599098
Target:  5'- cGUGCCCGGGUUGAGCGuguucacgaccuCCUUgaCGcGGu -3'
miRNA:   3'- -CACGGGCCCAGUUUGU------------GGAAggGC-CC- -5'
18385 3' -57.6 NC_004681.1 + 18398 0.67 0.609602
Target:  5'- -gGCCgCGGcGgCAAACGCCUUcgcaCCCGGa -3'
miRNA:   3'- caCGG-GCC-CaGUUUGUGGAA----GGGCCc -5'
18385 3' -57.6 NC_004681.1 + 46878 0.67 0.630655
Target:  5'- uUGUCCGGGUgGAGuuCACCgUCUuCGGGc -3'
miRNA:   3'- cACGGGCCCAgUUU--GUGGaAGG-GCCC- -5'
18385 3' -57.6 NC_004681.1 + 56764 0.67 0.630655
Target:  5'- cGUGCCgCGGGgCGAGgccCACCUguacgucuaCCGGGu -3'
miRNA:   3'- -CACGG-GCCCaGUUU---GUGGAag-------GGCCC- -5'
18385 3' -57.6 NC_004681.1 + 32364 0.67 0.640134
Target:  5'- --cCCCaGGUCGAugGCCUUgaguucgUCCGGGc -3'
miRNA:   3'- cacGGGcCCAGUUugUGGAA-------GGGCCC- -5'
18385 3' -57.6 NC_004681.1 + 71464 0.67 0.641187
Target:  5'- cGUGCCCaaaguaGG-CAGACAcggugcCCUgUCCCGGGu -3'
miRNA:   3'- -CACGGGc-----CCaGUUUGU------GGA-AGGGCCC- -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.