miRNA display CGI


Results 1 - 20 of 21 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
14907 5' -56 NC_003634.1 + 1498 0.66 0.166518
Target:  5'- aGGACCGGuuuCCCucaACCaUCCCuCCAuuucACCCa -3'
miRNA:   3'- cUUUGGCU---GGG---UGGaAGGG-GGU----UGGG- -5'
14907 5' -56 NC_003634.1 + 1164 0.66 0.166518
Target:  5'- cGAGCCGuCCguaCACUUcggaCCUCCGACCCc -3'
miRNA:   3'- cUUUGGCuGG---GUGGAa---GGGGGUUGGG- -5'
14907 5' -56 NC_003634.1 + 397 0.66 0.166518
Target:  5'- --cACUGGCgCCACCUugcucgUCUCCCA-UCCa -3'
miRNA:   3'- cuuUGGCUG-GGUGGA------AGGGGGUuGGG- -5'
14907 5' -56 NC_003634.1 + 929 0.66 0.161307
Target:  5'- -cGACUcGCCCGCCaccccUCCCCaaCAAUCCa -3'
miRNA:   3'- cuUUGGcUGGGUGGa----AGGGG--GUUGGG- -5'
14907 5' -56 NC_003634.1 + 4118 0.66 0.160794
Target:  5'- --cAUCGAucuucCCUAUCUUCCCCUucuccacGACCCc -3'
miRNA:   3'- cuuUGGCU-----GGGUGGAAGGGGG-------UUGGG- -5'
14907 5' -56 NC_003634.1 + 3003 0.66 0.146546
Target:  5'- cGAGcCCGGCCCcCCUcgccacuuuUCuUCCCGGCCUc -3'
miRNA:   3'- -CUUuGGCUGGGuGGA---------AG-GGGGUUGGG- -5'
14907 5' -56 NC_003634.1 + 6119 0.67 0.136957
Target:  5'- --uGCCGACCCcauuaccaaacugACCg-CCCCCuACCg -3'
miRNA:   3'- cuuUGGCUGGG-------------UGGaaGGGGGuUGGg -5'
14907 5' -56 NC_003634.1 + 5880 0.67 0.133027
Target:  5'- ---cCCuuCCCuCCUUCCCaaaCAACCCc -3'
miRNA:   3'- cuuuGGcuGGGuGGAAGGGg--GUUGGG- -5'
14907 5' -56 NC_003634.1 + 4364 0.67 0.132597
Target:  5'- --cACUGACCUccucccaACCcUCCCCagCGACCCc -3'
miRNA:   3'- cuuUGGCUGGG-------UGGaAGGGG--GUUGGG- -5'
14907 5' -56 NC_003634.1 + 2486 0.68 0.116787
Target:  5'- ---cCCGAUCCcCCUucaacucagauUCCCCCAacacaauccACCCu -3'
miRNA:   3'- cuuuGGCUGGGuGGA-----------AGGGGGU---------UGGG- -5'
14907 5' -56 NC_003634.1 + 5536 0.68 0.109379
Target:  5'- --cGCCGGCugcauCCGCaaUCCCCUuGCCCa -3'
miRNA:   3'- cuuUGGCUG-----GGUGgaAGGGGGuUGGG- -5'
14907 5' -56 NC_003634.1 + 1075 0.68 0.109379
Target:  5'- uGGAACUuccacaGgCCACCUUCCUccgCCAACCCc -3'
miRNA:   3'- -CUUUGGc-----UgGGUGGAAGGG---GGUUGGG- -5'
14907 5' -56 NC_003634.1 + 339 0.69 0.086783
Target:  5'- --uACCGACCCucACCcUCaCCCCA-UCCa -3'
miRNA:   3'- cuuUGGCUGGG--UGGaAG-GGGGUuGGG- -5'
14907 5' -56 NC_003634.1 + 5679 0.7 0.081189
Target:  5'- --uGCCGcCCCACCUcaUCCaguaCCAAUCUg -3'
miRNA:   3'- cuuUGGCuGGGUGGA--AGGg---GGUUGGG- -5'
14907 5' -56 NC_003634.1 + 6000 0.7 0.071019
Target:  5'- ---cCUGGCuCCAUUcUCUCCCAGCCCa -3'
miRNA:   3'- cuuuGGCUG-GGUGGaAGGGGGUUGGG- -5'
14907 5' -56 NC_003634.1 + 2214 0.7 0.071019
Target:  5'- --cACCuGACCUACCUccaCCCCgAACCUc -3'
miRNA:   3'- cuuUGG-CUGGGUGGAa--GGGGgUUGGG- -5'
14907 5' -56 NC_003634.1 + 2711 0.71 0.06002
Target:  5'- cAAACCcGCCUccguuGCCUcCCCCCAACUCc -3'
miRNA:   3'- cUUUGGcUGGG-----UGGAaGGGGGUUGGG- -5'
14907 5' -56 NC_003634.1 + 2838 0.71 0.06002
Target:  5'- --uGCCuGACUC-CCUUCuCUCCAACCCc -3'
miRNA:   3'- cuuUGG-CUGGGuGGAAG-GGGGUUGGG- -5'
14907 5' -56 NC_003634.1 + 2175 0.72 0.052426
Target:  5'- -cAACCcACCCGgauuccaauuuCCUUCCCUCAACCUc -3'
miRNA:   3'- cuUUGGcUGGGU-----------GGAAGGGGGUUGGG- -5'
14907 5' -56 NC_003634.1 + 4622 0.75 0.031438
Target:  5'- -----aGACCCAacCCUUCUCCCAGCCUc -3'
miRNA:   3'- cuuuggCUGGGU--GGAAGGGGGUUGGG- -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.