miRNA display CGI


Results 1 - 20 of 29 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
22943 3' -62.1 NC_005137.2 + 118205 0.66 0.606451
Target:  5'- cUGCGGCG-CGGCcacaaacgGUUGGCAcGCa -3'
miRNA:   3'- cACGCCGCgGCCGca------CAGCCGUuCGa -5'
22943 3' -62.1 NC_005137.2 + 25681 0.66 0.595485
Target:  5'- -gGCGGCGUUugcagacaaGGUggauugggacgcgGUGUCGGCGAGUc -3'
miRNA:   3'- caCGCCGCGG---------CCG-------------CACAGCCGUUCGa -5'
22943 3' -62.1 NC_005137.2 + 48925 0.66 0.566746
Target:  5'- uGUGCGGCGCCGcguccaacgaucGCGccgccuUGuUCGGCGacaagAGCg -3'
miRNA:   3'- -CACGCCGCGGC------------CGC------AC-AGCCGU-----UCGa -5'
22943 3' -62.1 NC_005137.2 + 70198 0.66 0.566746
Target:  5'- gGUGgaGGCGUCGGUgaagGUGUUGGUgaAGGCg -3'
miRNA:   3'- -CACg-CCGCGGCCG----CACAGCCG--UUCGa -5'
22943 3' -62.1 NC_005137.2 + 125062 0.66 0.556914
Target:  5'- -cGCGGCGCCGGaucUGaaCGGCGcaaaGGCa -3'
miRNA:   3'- caCGCCGCGGCCgc-ACa-GCCGU----UCGa -5'
22943 3' -62.1 NC_005137.2 + 104601 0.66 0.547131
Target:  5'- -cGUGGCGCugCGGCGUGUCGacugcCAAGa- -3'
miRNA:   3'- caCGCCGCG--GCCGCACAGCc----GUUCga -5'
22943 3' -62.1 NC_005137.2 + 96564 0.67 0.537404
Target:  5'- -cGCGuCGCCGcGCGgguagcgGUCGGCGcGGCUc -3'
miRNA:   3'- caCGCcGCGGC-CGCa------CAGCCGU-UCGA- -5'
22943 3' -62.1 NC_005137.2 + 103818 0.67 0.527737
Target:  5'- uGUGCGGCGgCGGguugGUGcaCGGCAuaAGCa -3'
miRNA:   3'- -CACGCCGCgGCCg---CACa-GCCGU--UCGa -5'
22943 3' -62.1 NC_005137.2 + 70360 0.67 0.526773
Target:  5'- gGUGUuggcgaaGGCGUCGGUgaagGUGUUGGCGgaGGCg -3'
miRNA:   3'- -CACG-------CCGCGGCCG----CACAGCCGU--UCGa -5'
22943 3' -62.1 NC_005137.2 + 31158 0.67 0.518135
Target:  5'- -aGCGGCGCCGaccaGCGUGcgCGGUuGGg- -3'
miRNA:   3'- caCGCCGCGGC----CGCACa-GCCGuUCga -5'
22943 3' -62.1 NC_005137.2 + 70175 0.67 0.508604
Target:  5'- -cGCGGUGCCGuGgGauUGcCGGCGGGUg -3'
miRNA:   3'- caCGCCGCGGC-CgC--ACaGCCGUUCGa -5'
22943 3' -62.1 NC_005137.2 + 129812 0.67 0.508604
Target:  5'- -gGCGGCGgCGGCaacGUGUCGGuCGAa-- -3'
miRNA:   3'- caCGCCGCgGCCG---CACAGCC-GUUcga -5'
22943 3' -62.1 NC_005137.2 + 106859 0.67 0.508604
Target:  5'- -gGCGGCGUuugCGGCugcgGUGgUGGCGGGCa -3'
miRNA:   3'- caCGCCGCG---GCCG----CACaGCCGUUCGa -5'
22943 3' -62.1 NC_005137.2 + 70306 0.67 0.48977
Target:  5'- gGUGaaGGCGUCGGUaaagGUGUUGGCGgaGGCg -3'
miRNA:   3'- -CACg-CCGCGGCCG----CACAGCCGU--UCGa -5'
22943 3' -62.1 NC_005137.2 + 70258 0.67 0.48977
Target:  5'- gGUGaaGGCGUCGGUaaagGUGUUGGCGgaGGCg -3'
miRNA:   3'- -CACg-CCGCGGCCG----CACAGCCGU--UCGa -5'
22943 3' -62.1 NC_005137.2 + 100048 0.67 0.48977
Target:  5'- -cGCGGCGCgCGGCGcGuUCaGCAuGCUu -3'
miRNA:   3'- caCGCCGCG-GCCGCaC-AGcCGUuCGA- -5'
22943 3' -62.1 NC_005137.2 + 5066 0.68 0.452229
Target:  5'- cGUGCGuGCGCCgcgacauugagacGGCGcGUCgacuuaacagaGGCGAGCUu -3'
miRNA:   3'- -CACGC-CGCGG-------------CCGCaCAG-----------CCGUUCGA- -5'
22943 3' -62.1 NC_005137.2 + 130408 0.68 0.435372
Target:  5'- -aGCGGCGgUGGCGg--CGGCAcguuuGGCg -3'
miRNA:   3'- caCGCCGCgGCCGCacaGCCGU-----UCGa -5'
22943 3' -62.1 NC_005137.2 + 110711 0.69 0.426647
Target:  5'- -cGCaGGUGCgGGCGcacaUCGGCGGGCa -3'
miRNA:   3'- caCG-CCGCGgCCGCac--AGCCGUUCGa -5'
22943 3' -62.1 NC_005137.2 + 108152 0.69 0.426647
Target:  5'- -gGCGGCGgCGGCG--UCGGUAuGCg -3'
miRNA:   3'- caCGCCGCgGCCGCacAGCCGUuCGa -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.