miRNA display CGI


Results 1 - 20 of 40 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
5589 3' -57.8 NC_001806.1 + 2386 0.66 0.819299
Target:  5'- cGGGGAUCUggCgcauccaGGCCGCCaUGcgGCg -3'
miRNA:   3'- -CCCUUAGGgaGa------CCGGCGGgACuaCG- -5'
5589 3' -57.8 NC_001806.1 + 3324 0.68 0.726671
Target:  5'- cGGGGcccgcggGUCCCUCcGGCCGCgg-GggGCu -3'
miRNA:   3'- -CCCU-------UAGGGAGaCCGGCGggaCuaCG- -5'
5589 3' -57.8 NC_001806.1 + 4379 0.69 0.698186
Target:  5'- cGGGggU-CCUCgccGCCGCCC-GggGCu -3'
miRNA:   3'- -CCCuuAgGGAGac-CGGCGGGaCuaCG- -5'
5589 3' -57.8 NC_001806.1 + 5894 0.67 0.793162
Target:  5'- cGGGcggCCCaagGGCCGCCCgccuUGCc -3'
miRNA:   3'- -CCCuuaGGGagaCCGGCGGGacu-ACG- -5'
5589 3' -57.8 NC_001806.1 + 7666 0.7 0.648126
Target:  5'- aGGGcucuaCCCUCUGGaCGCCCgGgcGCu -3'
miRNA:   3'- -CCCuua--GGGAGACCgGCGGGaCuaCG- -5'
5589 3' -57.8 NC_001806.1 + 20351 0.67 0.775019
Target:  5'- cGGGcggCCCUUgGGCCGCCCg----- -3'
miRNA:   3'- -CCCuuaGGGAGaCCGGCGGGacuacg -5'
5589 3' -57.8 NC_001806.1 + 22673 0.78 0.232937
Target:  5'- cGGGGAUCCUc---GCCGCCCUGggGCg -3'
miRNA:   3'- -CCCUUAGGGagacCGGCGGGACuaCG- -5'
5589 3' -57.8 NC_001806.1 + 23299 0.68 0.727643
Target:  5'- -aGAGUCCCggcccggCccGGCCGCCCggagGcgGCg -3'
miRNA:   3'- ccCUUAGGGa------Ga-CCGGCGGGa---CuaCG- -5'
5589 3' -57.8 NC_001806.1 + 23804 0.67 0.810741
Target:  5'- cGGGGGccgCCuCUUUGGCC-CCCUGc-GCg -3'
miRNA:   3'- -CCCUUa--GG-GAGACCGGcGGGACuaCG- -5'
5589 3' -57.8 NC_001806.1 + 23986 0.73 0.462268
Target:  5'- cGGGcuGUCCUgccugCUGGCgGCCCUGGccaaccggcugUGCg -3'
miRNA:   3'- -CCCu-UAGGGa----GACCGgCGGGACU-----------ACG- -5'
5589 3' -57.8 NC_001806.1 + 27837 0.68 0.756379
Target:  5'- cGGGuuGGUCCC-CggggacggGGCCGCCCcGcgGUg -3'
miRNA:   3'- -CCC--UUAGGGaGa-------CCGGCGGGaCuaCG- -5'
5589 3' -57.8 NC_001806.1 + 30958 0.75 0.352339
Target:  5'- cGGGggUCUCUagcgUGGUCGCCCUGucGCc -3'
miRNA:   3'- -CCCuuAGGGAg---ACCGGCGGGACuaCG- -5'
5589 3' -57.8 NC_001806.1 + 31249 0.66 0.843951
Target:  5'- aGGGca-CCCUagUGGgCGCCCUGGacuuccgcagccUGCg -3'
miRNA:   3'- -CCCuuaGGGAg-ACCgGCGGGACU------------ACG- -5'
5589 3' -57.8 NC_001806.1 + 33324 0.72 0.514875
Target:  5'- gGGGAGgaugucgccgacgCCCcUUGGCCGCCCcGGcUGCa -3'
miRNA:   3'- -CCCUUa------------GGGaGACCGGCGGGaCU-ACG- -5'
5589 3' -57.8 NC_001806.1 + 43120 0.71 0.557843
Target:  5'- cGGGAGUCCC---GGCCGCCCg----- -3'
miRNA:   3'- -CCCUUAGGGagaCCGGCGGGacuacg -5'
5589 3' -57.8 NC_001806.1 + 50183 0.69 0.668244
Target:  5'- uGGggUCCCUgCUGuaCugGCCCggGGUGCg -3'
miRNA:   3'- cCCuuAGGGA-GACcgG--CGGGa-CUACG- -5'
5589 3' -57.8 NC_001806.1 + 54496 0.68 0.746895
Target:  5'- uGGggUCCCUgggugggggCUGGUgacUGCCgUGGUGUu -3'
miRNA:   3'- cCCuuAGGGA---------GACCG---GCGGgACUACG- -5'
5589 3' -57.8 NC_001806.1 + 56702 0.67 0.784157
Target:  5'- cGGGAAcCCCg--GGUCGCUCUGGg-- -3'
miRNA:   3'- -CCCUUaGGGagaCCGGCGGGACUacg -5'
5589 3' -57.8 NC_001806.1 + 59000 0.67 0.810741
Target:  5'- aGGGcgccCCCUCcuccGGCUGCCCgaggGAcGCg -3'
miRNA:   3'- -CCCuua-GGGAGa---CCGGCGGGa---CUaCG- -5'
5589 3' -57.8 NC_001806.1 + 63457 0.66 0.859463
Target:  5'- aGGGGcUCCCggUCgUGGCCGCaCUGcgcacaAUGCc -3'
miRNA:   3'- -CCCUuAGGG--AG-ACCGGCGgGAC------UACG- -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.