miRNA display CGI


Results 1 - 20 of 80 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
7022 3' -58.1 NC_001875.2 + 1057 0.66 0.803519
Target:  5'- uUGGGCGCaacguuGGcgacCGCG-CGGUCAGGCUc -3'
miRNA:   3'- -ACUCGUG------CCac--GCGCuGUCAGUCCGG- -5'
7022 3' -58.1 NC_001875.2 + 2540 0.67 0.747932
Target:  5'- cGGGC-CGGUGaacaaCGGCGcGUCGGGCg -3'
miRNA:   3'- aCUCGuGCCACgc---GCUGU-CAGUCCGg -5'
7022 3' -58.1 NC_001875.2 + 3148 0.67 0.728501
Target:  5'- --uGCGCGGa-CGCGGC-GUCGGGCg -3'
miRNA:   3'- acuCGUGCCacGCGCUGuCAGUCCGg -5'
7022 3' -58.1 NC_001875.2 + 7386 0.67 0.728501
Target:  5'- -cGGCcacGCGGuUGCGCGACgcGGUCgcaaaacauauuGGGCCc -3'
miRNA:   3'- acUCG---UGCC-ACGCGCUG--UCAG------------UCCGG- -5'
7022 3' -58.1 NC_001875.2 + 9794 0.68 0.698759
Target:  5'- cGGGCACuGcGCGUGcACAGUaacguuGGGCCg -3'
miRNA:   3'- aCUCGUGcCaCGCGC-UGUCAg-----UCCGG- -5'
7022 3' -58.1 NC_001875.2 + 9967 0.67 0.738263
Target:  5'- -cAGCGUGGUGCaauUGACGGcgugCAGGCCa -3'
miRNA:   3'- acUCGUGCCACGc--GCUGUCa---GUCCGG- -5'
7022 3' -58.1 NC_001875.2 + 11994 0.66 0.7763
Target:  5'- uUGGGCGCgGGUGUgGUGGCgAG-CGcGGCCa -3'
miRNA:   3'- -ACUCGUG-CCACG-CGCUG-UCaGU-CCGG- -5'
7022 3' -58.1 NC_001875.2 + 12380 0.67 0.708741
Target:  5'- aGGGUgccACGGUGcCGCucgucGUCGGGCCg -3'
miRNA:   3'- aCUCG---UGCCAC-GCGcugu-CAGUCCGG- -5'
7022 3' -58.1 NC_001875.2 + 19345 0.73 0.407097
Target:  5'- gUGGGCGUGGUGCGCGGagcGUU-GGCCg -3'
miRNA:   3'- -ACUCGUGCCACGCGCUgu-CAGuCCGG- -5'
7022 3' -58.1 NC_001875.2 + 19478 0.72 0.424489
Target:  5'- cGGGCGCuGGUGC-UGGCGGcUCGGGCa -3'
miRNA:   3'- aCUCGUG-CCACGcGCUGUC-AGUCCGg -5'
7022 3' -58.1 NC_001875.2 + 19946 0.76 0.25948
Target:  5'- gGAGCGgccgGCGCGACGGUCcGGCCg -3'
miRNA:   3'- aCUCGUgccaCGCGCUGUCAGuCCGG- -5'
7022 3' -58.1 NC_001875.2 + 21693 0.66 0.812295
Target:  5'- cGAGCgcgacGCGGUGCuGCGguccagccGCAG-CAGGUUc -3'
miRNA:   3'- aCUCG-----UGCCACG-CGC--------UGUCaGUCCGG- -5'
7022 3' -58.1 NC_001875.2 + 22560 0.68 0.678639
Target:  5'- uUGAGCGCucGGUuuuaacgcccggGCGCGGCGcGUU-GGCCg -3'
miRNA:   3'- -ACUCGUG--CCA------------CGCGCUGU-CAGuCCGG- -5'
7022 3' -58.1 NC_001875.2 + 24022 0.74 0.349881
Target:  5'- cGGGCGCGG-GCuCGGCGGUCGcguGGCUg -3'
miRNA:   3'- aCUCGUGCCaCGcGCUGUCAGU---CCGG- -5'
7022 3' -58.1 NC_001875.2 + 26162 0.71 0.479195
Target:  5'- cGGGCGCGGUGUGUGGguGgccGGCa -3'
miRNA:   3'- aCUCGUGCCACGCGCUguCaguCCGg -5'
7022 3' -58.1 NC_001875.2 + 27470 0.75 0.298624
Target:  5'- gGAGUggGGUGCGCGACGcuUUAGGCg -3'
miRNA:   3'- aCUCGugCCACGCGCUGUc-AGUCCGg -5'
7022 3' -58.1 NC_001875.2 + 29289 0.69 0.627823
Target:  5'- gGGGCGCGGUcGUGUGGCGuGUCGuGCg -3'
miRNA:   3'- aCUCGUGCCA-CGCGCUGU-CAGUcCGg -5'
7022 3' -58.1 NC_001875.2 + 32772 0.68 0.668518
Target:  5'- cGAGCGCGuccucGCGCGGCGuGggCGGGCg -3'
miRNA:   3'- aCUCGUGCca---CGCGCUGU-Ca-GUCCGg -5'
7022 3' -58.1 NC_001875.2 + 32925 0.67 0.728501
Target:  5'- cGAGCACuuGGUgaGCGCGuCAGUUugcGcGCCg -3'
miRNA:   3'- aCUCGUG--CCA--CGCGCuGUCAGu--C-CGG- -5'
7022 3' -58.1 NC_001875.2 + 35649 0.69 0.597307
Target:  5'- cGcAGCGCaaGUGCGCGGCcaUCAGGCa -3'
miRNA:   3'- aC-UCGUGc-CACGCGCUGucAGUCCGg -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.