miRNA display CGI


Results 1 - 20 of 20 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
7667 5' -54.3 NC_001973.1 + 87661 0.66 0.958292
Target:  5'- aGCCCauGUCCACCGagUCGCaAUCgaugagCUGCu -3'
miRNA:   3'- cUGGG--CAGGUGGU--AGUGaUAGa-----GGCG- -5'
7667 5' -54.3 NC_001973.1 + 86680 0.66 0.958292
Target:  5'- cGCgCCGUCgagUACCA-CGCcuUCUCCGCg -3'
miRNA:   3'- cUG-GGCAG---GUGGUaGUGauAGAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 86986 0.67 0.947909
Target:  5'- cGGCgCCGUCCGCCccgcccgacgacgacGaCGCg--CUCCGCc -3'
miRNA:   3'- -CUG-GGCAGGUGG---------------UaGUGauaGAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 3404 0.67 0.946172
Target:  5'- aACUCGcCCACCAgcgCGCcGUUUCUGUg -3'
miRNA:   3'- cUGGGCaGGUGGUa--GUGaUAGAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 121049 0.67 0.941666
Target:  5'- cACCgCGUCCACCuuGUCGCUcagggccuugauGUCggCGCg -3'
miRNA:   3'- cUGG-GCAGGUGG--UAGUGA------------UAGagGCG- -5'
7667 5' -54.3 NC_001973.1 + 73476 0.67 0.941666
Target:  5'- -uCCgGUCCugaaaugguCCAUCGCUAcauaauUUUCCGCu -3'
miRNA:   3'- cuGGgCAGGu--------GGUAGUGAU------AGAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 96458 0.67 0.936922
Target:  5'- gGGCCCGUCgACgagCAUCGCgccgcUCagCCGCa -3'
miRNA:   3'- -CUGGGCAGgUG---GUAGUGau---AGa-GGCG- -5'
7667 5' -54.3 NC_001973.1 + 27844 0.67 0.936922
Target:  5'- cGGCCCgGUUgGCCggCGCUGgcggCCGCg -3'
miRNA:   3'- -CUGGG-CAGgUGGuaGUGAUaga-GGCG- -5'
7667 5' -54.3 NC_001973.1 + 70820 0.67 0.936922
Target:  5'- cGGCgCCGUCCAgCCGUUcgacaACUGUCg-CGCu -3'
miRNA:   3'- -CUG-GGCAGGU-GGUAG-----UGAUAGagGCG- -5'
7667 5' -54.3 NC_001973.1 + 143321 0.67 0.936922
Target:  5'- gGGCCUGUCguagugaACCGUCAC-GUCcCCGUg -3'
miRNA:   3'- -CUGGGCAGg------UGGUAGUGaUAGaGGCG- -5'
7667 5' -54.3 NC_001973.1 + 105143 0.67 0.936922
Target:  5'- cGACgCGUuaUCACCGauugaCGCaGUCUCCGCg -3'
miRNA:   3'- -CUGgGCA--GGUGGUa----GUGaUAGAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 45105 0.67 0.931938
Target:  5'- cGugCCGUCCGCCAgcaGCUcGUC-CCa- -3'
miRNA:   3'- -CugGGCAGGUGGUag-UGA-UAGaGGcg -5'
7667 5' -54.3 NC_001973.1 + 143056 0.67 0.926715
Target:  5'- gGACCCGUUCgacuguaacGCCuacCACgUGUgUCCGCa -3'
miRNA:   3'- -CUGGGCAGG---------UGGua-GUG-AUAgAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 61407 0.67 0.921251
Target:  5'- cGGCCCG-CCGCCAaCACgucCUCCcCg -3'
miRNA:   3'- -CUGGGCaGGUGGUaGUGauaGAGGcG- -5'
7667 5' -54.3 NC_001973.1 + 45238 0.68 0.909604
Target:  5'- cGGCCCG-CCACCuggcUCAUg--UUCUGCg -3'
miRNA:   3'- -CUGGGCaGGUGGu---AGUGauaGAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 5006 0.68 0.890361
Target:  5'- gGACgCGUCCACUAcgacggugCGCUcuUCUCUGCu -3'
miRNA:   3'- -CUGgGCAGGUGGUa-------GUGAu-AGAGGCG- -5'
7667 5' -54.3 NC_001973.1 + 7995 0.71 0.775921
Target:  5'- cGACCCGcCCGCCGUUguauaAgaAUCgggCCGCg -3'
miRNA:   3'- -CUGGGCaGGUGGUAG-----UgaUAGa--GGCG- -5'
7667 5' -54.3 NC_001973.1 + 109033 0.74 0.636542
Target:  5'- cGGCUCGUCCACCucGUCucggUUGUCgggCCGCg -3'
miRNA:   3'- -CUGGGCAGGUGG--UAGu---GAUAGa--GGCG- -5'
7667 5' -54.3 NC_001973.1 + 109590 0.79 0.346996
Target:  5'- cGAgCCGUCCACCAgu-CUGUCgCCGCa -3'
miRNA:   3'- -CUgGGCAGGUGGUaguGAUAGaGGCG- -5'
7667 5' -54.3 NC_001973.1 + 138394 1.13 0.002653
Target:  5'- cGACCCGUCCACCAUCACUAUCUCCGCg -3'
miRNA:   3'- -CUGGGCAGGUGGUAGUGAUAGAGGCG- -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.