miRNA display CGI


Results 1 - 20 of 26 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
27598 3' -56.5 NC_005882.1 + 17641 0.66 0.520902
Target:  5'- gGCCuacaUGGCGgGCCGcuacgccgagcaaauGGCgaacgUCGACGAUc -3'
miRNA:   3'- -CGG----ACCGCgUGGC---------------UCGaa---AGCUGCUA- -5'
27598 3' -56.5 NC_005882.1 + 30258 0.66 0.516574
Target:  5'- aGCCguacGcGCGCgaaGCCGGGCU-UCGACGc- -3'
miRNA:   3'- -CGGa---C-CGCG---UGGCUCGAaAGCUGCua -5'
27598 3' -56.5 NC_005882.1 + 11968 0.66 0.516574
Target:  5'- gGCgCUGGCuaccGCGCCGAGCU---GACGc- -3'
miRNA:   3'- -CG-GACCG----CGUGGCUCGAaagCUGCua -5'
27598 3' -56.5 NC_005882.1 + 13035 0.66 0.49516
Target:  5'- uCCUGGCGUACCccggaaucaaGGGCgucaUCGGCGc- -3'
miRNA:   3'- cGGACCGCGUGG----------CUCGaa--AGCUGCua -5'
27598 3' -56.5 NC_005882.1 + 12252 0.66 0.484605
Target:  5'- gGCC-GGUGCAUgCGAGCgcaUGGCGAUg -3'
miRNA:   3'- -CGGaCCGCGUG-GCUCGaaaGCUGCUA- -5'
27598 3' -56.5 NC_005882.1 + 25477 0.67 0.474158
Target:  5'- uGCCUcGCGCGC--AGCUcgUCGGCGAc -3'
miRNA:   3'- -CGGAcCGCGUGgcUCGAa-AGCUGCUa -5'
27598 3' -56.5 NC_005882.1 + 7615 0.67 0.463826
Target:  5'- gGCCUGGaguGCGCCGAGC-----ACGAa -3'
miRNA:   3'- -CGGACCg--CGUGGCUCGaaagcUGCUa -5'
27598 3' -56.5 NC_005882.1 + 12548 0.67 0.463826
Target:  5'- gGCC-GGCGCugCG-GCgaUCGGCGc- -3'
miRNA:   3'- -CGGaCCGCGugGCuCGaaAGCUGCua -5'
27598 3' -56.5 NC_005882.1 + 9569 0.67 0.463826
Target:  5'- uCCUGGCGCGUCGuGCUUgCGGCc-- -3'
miRNA:   3'- cGGACCGCGUGGCuCGAAaGCUGcua -5'
27598 3' -56.5 NC_005882.1 + 35103 0.67 0.43356
Target:  5'- cCUUGGCGCACCGuuuAGCgaugugcCGAUGGUu -3'
miRNA:   3'- cGGACCGCGUGGC---UCGaaa----GCUGCUA- -5'
27598 3' -56.5 NC_005882.1 + 27534 0.67 0.43356
Target:  5'- cGCCcagGGCGCcgcaaucggcAUCGGGCgcucgUCGGCGGUc -3'
miRNA:   3'- -CGGa--CCGCG----------UGGCUCGaa---AGCUGCUA- -5'
27598 3' -56.5 NC_005882.1 + 22142 0.68 0.404474
Target:  5'- gGCCugUGGCaGUACgugauCGAGUUUUCGGCGGg -3'
miRNA:   3'- -CGG--ACCG-CGUG-----GCUCGAAAGCUGCUa -5'
27598 3' -56.5 NC_005882.1 + 29178 0.68 0.395056
Target:  5'- cGCC-GGCGCGCCGuuGCUcgCGuGCGGc -3'
miRNA:   3'- -CGGaCCGCGUGGCu-CGAaaGC-UGCUa -5'
27598 3' -56.5 NC_005882.1 + 19868 0.69 0.367666
Target:  5'- uCCgaaGCGCGCCGAGCUg--GACGGc -3'
miRNA:   3'- cGGac-CGCGUGGCUCGAaagCUGCUa -5'
27598 3' -56.5 NC_005882.1 + 21423 0.69 0.367666
Target:  5'- ---cGGCGCACCG-GCgc-CGACGAc -3'
miRNA:   3'- cggaCCGCGUGGCuCGaaaGCUGCUa -5'
27598 3' -56.5 NC_005882.1 + 6640 0.69 0.358831
Target:  5'- cGUCgugcGGCGCGCCGuGCgucUCGGCGu- -3'
miRNA:   3'- -CGGa---CCGCGUGGCuCGaa-AGCUGCua -5'
27598 3' -56.5 NC_005882.1 + 19144 0.69 0.324995
Target:  5'- cGCCcGGCGCcgaCGAGU--UCGGCGAa -3'
miRNA:   3'- -CGGaCCGCGug-GCUCGaaAGCUGCUa -5'
27598 3' -56.5 NC_005882.1 + 3442 0.7 0.316916
Target:  5'- uGCCUGaCgGCACgCGGGUUUUCGACGc- -3'
miRNA:   3'- -CGGACcG-CGUG-GCUCGAAAGCUGCua -5'
27598 3' -56.5 NC_005882.1 + 12813 0.7 0.308988
Target:  5'- uCgaGcGCGUGCCGGGCUUcUCGGCGAa -3'
miRNA:   3'- cGgaC-CGCGUGGCUCGAA-AGCUGCUa -5'
27598 3' -56.5 NC_005882.1 + 5078 0.7 0.285379
Target:  5'- uGCgCUGGCGUAUCGgcgugccgccgguAGCUUUCGcCGAUc -3'
miRNA:   3'- -CG-GACCGCGUGGC-------------UCGAAAGCuGCUA- -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.