miRNA display CGI


Results 1 - 20 of 51 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
18980 5' -59.4 NC_004684.1 + 33819 0.66 0.600443
Target:  5'- --gCGUCGGCGg--GCGGUGUgCCcGGc -3'
miRNA:   3'- uggGCAGCCGCuaaCGCCGCA-GGaCC- -5'
18980 5' -59.4 NC_004684.1 + 45868 0.66 0.590049
Target:  5'- --gCGUCGGCGAUcaugUGCGcGCcGUCCacgcUGGc -3'
miRNA:   3'- uggGCAGCCGCUA----ACGC-CG-CAGG----ACC- -5'
18980 5' -59.4 NC_004684.1 + 39063 0.66 0.579687
Target:  5'- gACCCG-CGcGCGAacaccucggUGCGGUG-CUUGGu -3'
miRNA:   3'- -UGGGCaGC-CGCUa--------ACGCCGCaGGACC- -5'
18980 5' -59.4 NC_004684.1 + 51638 0.66 0.579687
Target:  5'- cACCUuUCGGUGuacGCGGCcaGUCgCUGGg -3'
miRNA:   3'- -UGGGcAGCCGCuaaCGCCG--CAG-GACC- -5'
18980 5' -59.4 NC_004684.1 + 31188 0.66 0.572456
Target:  5'- cGCCUGcgCGGCGuccugccagcccucgGCGGCacguUCCUGGa -3'
miRNA:   3'- -UGGGCa-GCCGCuaa------------CGCCGc---AGGACC- -5'
18980 5' -59.4 NC_004684.1 + 10107 0.66 0.569364
Target:  5'- uCCCgGUCGGCGc--GCGGCagGUCC-GGc -3'
miRNA:   3'- uGGG-CAGCCGCuaaCGCCG--CAGGaCC- -5'
18980 5' -59.4 NC_004684.1 + 12960 0.66 0.559087
Target:  5'- cCCCGgCGGCGGccucgGCGGUGgcggCCUcGGc -3'
miRNA:   3'- uGGGCaGCCGCUaa---CGCCGCa---GGA-CC- -5'
18980 5' -59.4 NC_004684.1 + 61331 0.67 0.548862
Target:  5'- cGCCC-UCGGCGGcguagGUGGCGgCCaGGu -3'
miRNA:   3'- -UGGGcAGCCGCUaa---CGCCGCaGGaCC- -5'
18980 5' -59.4 NC_004684.1 + 747 0.67 0.548862
Target:  5'- cACgCUGUCGuGCGcgU-CGGUGUCCUuGGg -3'
miRNA:   3'- -UG-GGCAGC-CGCuaAcGCCGCAGGA-CC- -5'
18980 5' -59.4 NC_004684.1 + 45141 0.67 0.528597
Target:  5'- cACCCaggccUCGGCGAagucGaCGGCGUCCUccaGGu -3'
miRNA:   3'- -UGGGc----AGCCGCUaa--C-GCCGCAGGA---CC- -5'
18980 5' -59.4 NC_004684.1 + 30160 0.67 0.528597
Target:  5'- gGCCaGUgGGCGAUcaacgccgucgGCGGCGagCUGGu -3'
miRNA:   3'- -UGGgCAgCCGCUAa----------CGCCGCagGACC- -5'
18980 5' -59.4 NC_004684.1 + 19456 0.67 0.498742
Target:  5'- uGCCCGggCGGCGGUggcccGCGcgacauGCGccCCUGGa -3'
miRNA:   3'- -UGGGCa-GCCGCUAa----CGC------CGCa-GGACC- -5'
18980 5' -59.4 NC_004684.1 + 61176 0.67 0.497759
Target:  5'- gGCCagGUCGGCGGggUUGguggccuCGGCGUacaCCUGGc -3'
miRNA:   3'- -UGGg-CAGCCGCU--AAC-------GCCGCA---GGACC- -5'
18980 5' -59.4 NC_004684.1 + 39321 0.67 0.495797
Target:  5'- gACCCGUCGGCGcgcaagaucaGCGaGCGguaccccgaccccUUCUGGg -3'
miRNA:   3'- -UGGGCAGCCGCuaa-------CGC-CGC-------------AGGACC- -5'
18980 5' -59.4 NC_004684.1 + 29350 0.68 0.488957
Target:  5'- -gCUGUCGGCGGUcgGCGGUGaugCCUugaauGGg -3'
miRNA:   3'- ugGGCAGCCGCUAa-CGCCGCa--GGA-----CC- -5'
18980 5' -59.4 NC_004684.1 + 50329 0.68 0.479262
Target:  5'- cGCCCGgccaGGCGg--GCGGCcUCCuUGGc -3'
miRNA:   3'- -UGGGCag--CCGCuaaCGCCGcAGG-ACC- -5'
18980 5' -59.4 NC_004684.1 + 25991 0.68 0.479262
Target:  5'- aACCCGcUGGCGcuccugGCGGCGgCCgGGu -3'
miRNA:   3'- -UGGGCaGCCGCuaa---CGCCGCaGGaCC- -5'
18980 5' -59.4 NC_004684.1 + 19714 0.68 0.469663
Target:  5'- gACCUGggacggccacUCGGUGAgcGCGGCa-CCUGGa -3'
miRNA:   3'- -UGGGC----------AGCCGCUaaCGCCGcaGGACC- -5'
18980 5' -59.4 NC_004684.1 + 48898 0.68 0.460163
Target:  5'- gGCCUGUUGGaGAacgGCGGCcuGUCCUGc -3'
miRNA:   3'- -UGGGCAGCCgCUaa-CGCCG--CAGGACc -5'
18980 5' -59.4 NC_004684.1 + 4176 0.68 0.460163
Target:  5'- gGCCCGguugcgccCGGCGGgcGCGGUgGUUCUGa -3'
miRNA:   3'- -UGGGCa-------GCCGCUaaCGCCG-CAGGACc -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.