miRNA display CGI


Results 1 - 20 of 33 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
2890 3' -59.7 NC_001493.1 + 133941 0.66 0.721814
Target:  5'- gGUCAGUUUgaaacccCCGUCCacgGCCa-CGGGGCg -3'
miRNA:   3'- aUAGUCGAA-------GGCAGG---CGGggGCCUCG- -5'
2890 3' -59.7 NC_001493.1 + 18387 0.66 0.721814
Target:  5'- gGUCAGUUUgaaacccCCGUCCacgGCCa-CGGGGCg -3'
miRNA:   3'- aUAGUCGAA-------GGCAGG---CGGggGCCUCG- -5'
2890 3' -59.7 NC_001493.1 + 39908 0.66 0.71299
Target:  5'- gAUC-GCUUCCcucGUCgCGCUCCgGGAGa -3'
miRNA:   3'- aUAGuCGAAGG---CAG-GCGGGGgCCUCg -5'
2890 3' -59.7 NC_001493.1 + 100803 0.66 0.703123
Target:  5'- --aCAGUgucgUUCCGgcgacaacccCCGCCCCCGaAGCu -3'
miRNA:   3'- auaGUCG----AAGGCa---------GGCGGGGGCcUCG- -5'
2890 3' -59.7 NC_001493.1 + 109852 0.66 0.703123
Target:  5'- -uUCGGCc-UCGagCGCgCCCGGGGCg -3'
miRNA:   3'- auAGUCGaaGGCagGCGgGGGCCUCG- -5'
2890 3' -59.7 NC_001493.1 + 14708 0.66 0.703123
Target:  5'- gAUCGGCguauacggUCCGU-CGUCCgCCGGcGCu -3'
miRNA:   3'- aUAGUCGa-------AGGCAgGCGGG-GGCCuCG- -5'
2890 3' -59.7 NC_001493.1 + 63094 0.66 0.693196
Target:  5'- --aCGGUgu-CGUUCGCUCCCGcGGGCa -3'
miRNA:   3'- auaGUCGaagGCAGGCGGGGGC-CUCG- -5'
2890 3' -59.7 NC_001493.1 + 126772 0.66 0.692201
Target:  5'- gUGUgAGCgUCCGUCCcacgggucgucgaGCCCUCGGGa- -3'
miRNA:   3'- -AUAgUCGaAGGCAGG-------------CGGGGGCCUcg -5'
2890 3' -59.7 NC_001493.1 + 11218 0.66 0.692201
Target:  5'- gUGUgAGCgUCCGUCCcacgggucgucgaGCCCUCGGGa- -3'
miRNA:   3'- -AUAgUCGaAGGCAGG-------------CGGGGGCCUcg -5'
2890 3' -59.7 NC_001493.1 + 124288 0.67 0.673204
Target:  5'- aAUUGGgUUaagaacaCGggUCGCCCCCGGGGCu -3'
miRNA:   3'- aUAGUCgAAg------GCa-GGCGGGGGCCUCG- -5'
2890 3' -59.7 NC_001493.1 + 8734 0.67 0.673204
Target:  5'- aAUUGGgUUaagaacaCGggUCGCCCCCGGGGCu -3'
miRNA:   3'- aUAGUCgAAg------GCa-GGCGGGGGCCUCG- -5'
2890 3' -59.7 NC_001493.1 + 36877 0.67 0.663155
Target:  5'- gGUC-GCUggCgGUCCGCCCcgCCGGuguGCg -3'
miRNA:   3'- aUAGuCGAa-GgCAGGCGGG--GGCCu--CG- -5'
2890 3' -59.7 NC_001493.1 + 107610 0.67 0.662148
Target:  5'- gUGUCGGCUUCCGUUucaccguguguggUGCCgugaguugaUCCGGGGg -3'
miRNA:   3'- -AUAGUCGAAGGCAG-------------GCGG---------GGGCCUCg -5'
2890 3' -59.7 NC_001493.1 + 15181 0.67 0.647028
Target:  5'- -uUCGGCU-CCGggaCGCCCCgcuacgacggacuacUGGGGCa -3'
miRNA:   3'- auAGUCGAaGGCag-GCGGGG---------------GCCUCG- -5'
2890 3' -59.7 NC_001493.1 + 62964 0.67 0.642991
Target:  5'- gGUCAcGgUgCCGgUCGCCCCCGuGGGCu -3'
miRNA:   3'- aUAGU-CgAaGGCaGGCGGGGGC-CUCG- -5'
2890 3' -59.7 NC_001493.1 + 62803 0.67 0.642991
Target:  5'- gGUCAcGgUgCCGgUCGCCCCCGuGGGCu -3'
miRNA:   3'- aUAGU-CgAaGGCaGGCGGGGGC-CUCG- -5'
2890 3' -59.7 NC_001493.1 + 62719 0.67 0.642991
Target:  5'- gGUCAcGgUgCCGgUCGCCCCCGuGGGCu -3'
miRNA:   3'- aUAGU-CgAaGGCaGGCGGGGGC-CUCG- -5'
2890 3' -59.7 NC_001493.1 + 21237 0.67 0.642991
Target:  5'- -uUCAGg--CCG-CCGCCCCUGGugaAGCc -3'
miRNA:   3'- auAGUCgaaGGCaGGCGGGGGCC---UCG- -5'
2890 3' -59.7 NC_001493.1 + 87639 0.67 0.642991
Target:  5'- cGUCgAGuCUUCgGaugacUCCGCCCgUGGAGCc -3'
miRNA:   3'- aUAG-UC-GAAGgC-----AGGCGGGgGCCUCG- -5'
2890 3' -59.7 NC_001493.1 + 4763 0.67 0.632892
Target:  5'- -cUCGGUUUCCacggGUCCGCCUCC--AGCu -3'
miRNA:   3'- auAGUCGAAGG----CAGGCGGGGGccUCG- -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.