miRNA display CGI


Results 1 - 19 of 19 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
5302 3' -60.6 NC_001798.1 + 109341 0.66 0.711395
Target:  5'- gGCCcacUCGCGcGuGCUGGCCG-GCCUg-- -3'
miRNA:   3'- -UGGa--AGCGU-C-CGACCGGCuCGGAgac -5'
5302 3' -60.6 NC_001798.1 + 39882 0.66 0.711395
Target:  5'- uGCCggCGUccucgGGGCgGGCCGGGggaCCUUUGg -3'
miRNA:   3'- -UGGaaGCG-----UCCGaCCGGCUC---GGAGAC- -5'
5302 3' -60.6 NC_001798.1 + 125542 0.66 0.701576
Target:  5'- cGCCgagCGuCAGGCccGCCGAcGCCUCg- -3'
miRNA:   3'- -UGGaa-GC-GUCCGacCGGCU-CGGAGac -5'
5302 3' -60.6 NC_001798.1 + 149665 0.66 0.681777
Target:  5'- cGCCgggUCGCGGGCcccgGGCUcgGGGCCg--- -3'
miRNA:   3'- -UGGa--AGCGUCCGa---CCGG--CUCGGagac -5'
5302 3' -60.6 NC_001798.1 + 36313 0.66 0.671814
Target:  5'- gGCggggCGCGGGCcggGGCCGGGgCUCg- -3'
miRNA:   3'- -UGgaa-GCGUCCGa--CCGGCUCgGAGac -5'
5302 3' -60.6 NC_001798.1 + 102225 0.66 0.66182
Target:  5'- gACCgggCGC-GGCUcgGGgCGGGCCUCg- -3'
miRNA:   3'- -UGGaa-GCGuCCGA--CCgGCUCGGAGac -5'
5302 3' -60.6 NC_001798.1 + 24662 0.66 0.66182
Target:  5'- gACCUggcggccgUGCcgGGGCUGGCCGgAGCC-Cg- -3'
miRNA:   3'- -UGGAa-------GCG--UCCGACCGGC-UCGGaGac -5'
5302 3' -60.6 NC_001798.1 + 57145 0.66 0.651803
Target:  5'- gACCgaguacagcCGCGGGCUGGCgccCGGGCCg--- -3'
miRNA:   3'- -UGGaa-------GCGUCCGACCG---GCUCGGagac -5'
5302 3' -60.6 NC_001798.1 + 97683 0.68 0.571753
Target:  5'- cGCCUgaccaaGCGGucGCUGGCC-AGCCUCg- -3'
miRNA:   3'- -UGGAag----CGUC--CGACCGGcUCGGAGac -5'
5302 3' -60.6 NC_001798.1 + 135209 0.68 0.571753
Target:  5'- cGCCcUCGCGGGCcucggggaGGCCGGGCUg--- -3'
miRNA:   3'- -UGGaAGCGUCCGa-------CCGGCUCGGagac -5'
5302 3' -60.6 NC_001798.1 + 77290 0.68 0.555951
Target:  5'- gGCCUcgccccuguccuuccUCGCGGuGCUGGCCGAuagcGCCg--- -3'
miRNA:   3'- -UGGA---------------AGCGUC-CGACCGGCU----CGGagac -5'
5302 3' -60.6 NC_001798.1 + 146466 0.68 0.55202
Target:  5'- aGCCgagcagcgcCGCGGGCUccggGGCCGGGCCg--- -3'
miRNA:   3'- -UGGaa-------GCGUCCGA----CCGGCUCGGagac -5'
5302 3' -60.6 NC_001798.1 + 23842 0.68 0.55202
Target:  5'- uGCUguacgGCGGGCUGGgCGAcagccgccccgGCCUCUGg -3'
miRNA:   3'- -UGGaag--CGUCCGACCgGCU-----------CGGAGAC- -5'
5302 3' -60.6 NC_001798.1 + 25335 0.69 0.513227
Target:  5'- cGCCc-CGCGGGCcgUGGCCGAG-CUCa- -3'
miRNA:   3'- -UGGaaGCGUCCG--ACCGGCUCgGAGac -5'
5302 3' -60.6 NC_001798.1 + 128256 0.69 0.509407
Target:  5'- gGCCggcaugguggacCGCGGGCUcGGCCGGcaCCUCUGg -3'
miRNA:   3'- -UGGaa----------GCGUCCGA-CCGGCUc-GGAGAC- -5'
5302 3' -60.6 NC_001798.1 + 124430 0.72 0.34105
Target:  5'- cCCgcggucgCGCGGGCcgUGGCCaGAGCCUCa- -3'
miRNA:   3'- uGGaa-----GCGUCCG--ACCGG-CUCGGAGac -5'
5302 3' -60.6 NC_001798.1 + 115704 0.72 0.34105
Target:  5'- uUCUUCGCGGGCgUGGCCGAcgucgaGCUUCc- -3'
miRNA:   3'- uGGAAGCGUCCG-ACCGGCU------CGGAGac -5'
5302 3' -60.6 NC_001798.1 + 135022 0.73 0.305041
Target:  5'- uGCCccCGCGGGCaUGGCCGgccguGGCCUCg- -3'
miRNA:   3'- -UGGaaGCGUCCG-ACCGGC-----UCGGAGac -5'
5302 3' -60.6 NC_001798.1 + 18852 1.08 0.001179
Target:  5'- aACCUUCGCAGGCUGGCCGAGCCUCUGa -3'
miRNA:   3'- -UGGAAGCGUCCGACCGGCUCGGAGAC- -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.