miRNA display CGI


Results 1 - 20 of 72 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
6736 3' -51.8 NC_001875.2 + 119645 1.12 0.004109
Target:  5'- gGCACUUUACGGCCAGGCAAACCUCGGc -3'
miRNA:   3'- -CGUGAAAUGCCGGUCCGUUUGGAGCC- -5'
6736 3' -51.8 NC_001875.2 + 3101 0.68 0.953056
Target:  5'- cGCGCcggggcGCGGCUcgcGGcGCAGACCUgGGc -3'
miRNA:   3'- -CGUGaaa---UGCCGG---UC-CGUUUGGAgCC- -5'
6736 3' -51.8 NC_001875.2 + 97124 0.68 0.958597
Target:  5'- uGCACgcugccaaacuCGGCUAuGGCGAACCcgUUGGg -3'
miRNA:   3'- -CGUGaaau-------GCCGGU-CCGUUUGG--AGCC- -5'
6736 3' -51.8 NC_001875.2 + 96757 0.66 0.986681
Target:  5'- cGUACUUgacgccgucgaUGCGGCC--GCAAACCagcaCGGg -3'
miRNA:   3'- -CGUGAA-----------AUGCCGGucCGUUUGGa---GCC- -5'
6736 3' -51.8 NC_001875.2 + 65096 0.72 0.829953
Target:  5'- cGCGCUcaacgagGCGGCCAaGCAgcucAGCCUCGc -3'
miRNA:   3'- -CGUGAaa-----UGCCGGUcCGU----UUGGAGCc -5'
6736 3' -51.8 NC_001875.2 + 2666 0.71 0.84605
Target:  5'- gGCGCcg-GCGGCgCcugGGGCAAcugcggcGCCUCGGc -3'
miRNA:   3'- -CGUGaaaUGCCG-G---UCCGUU-------UGGAGCC- -5'
6736 3' -51.8 NC_001875.2 + 54365 0.7 0.905733
Target:  5'- gGCGCg-UugGGCgAGcGCAcGCCUUGGu -3'
miRNA:   3'- -CGUGaaAugCCGgUC-CGUuUGGAGCC- -5'
6736 3' -51.8 NC_001875.2 + 89339 0.69 0.918026
Target:  5'- -aGCUUUGCGGCgCAcGCGGACgaCGGc -3'
miRNA:   3'- cgUGAAAUGCCG-GUcCGUUUGgaGCC- -5'
6736 3' -51.8 NC_001875.2 + 31557 0.69 0.934559
Target:  5'- cGCGCUgcaggUugGGCCcGGCGGcuuCCUUGc -3'
miRNA:   3'- -CGUGAa----AugCCGGuCCGUUu--GGAGCc -5'
6736 3' -51.8 NC_001875.2 + 54594 0.68 0.948806
Target:  5'- cGCuGCUUUGCgcgaGGCUGGGCGAAgaUUCGGu -3'
miRNA:   3'- -CG-UGAAAUG----CCGGUCCGUUUg-GAGCC- -5'
6736 3' -51.8 NC_001875.2 + 41132 0.68 0.93956
Target:  5'- cGCGCUUgaccgGCGGCCGcgccGGCAAcCCcaUCGu -3'
miRNA:   3'- -CGUGAAa----UGCCGGU----CCGUUuGG--AGCc -5'
6736 3' -51.8 NC_001875.2 + 19942 0.69 0.934044
Target:  5'- aCACggaGCGGCCGGcGCGAcgguccggccggcGCCUCGc -3'
miRNA:   3'- cGUGaaaUGCCGGUC-CGUU-------------UGGAGCc -5'
6736 3' -51.8 NC_001875.2 + 53001 0.75 0.645852
Target:  5'- uGCACUUUGCGGCCAGccugucggugcccaCGGACUaCGGg -3'
miRNA:   3'- -CGUGAAAUGCCGGUCc-------------GUUUGGaGCC- -5'
6736 3' -51.8 NC_001875.2 + 13529 0.68 0.944309
Target:  5'- aGCGC---GCGGCC-GGCc-GCCUCGa -3'
miRNA:   3'- -CGUGaaaUGCCGGuCCGuuUGGAGCc -5'
6736 3' -51.8 NC_001875.2 + 19480 0.74 0.694183
Target:  5'- gGCGCUggugcugGCGGCuCGGGCAGcuccuCCUCGa -3'
miRNA:   3'- -CGUGAaa-----UGCCG-GUCCGUUu----GGAGCc -5'
6736 3' -51.8 NC_001875.2 + 113889 0.69 0.918026
Target:  5'- cGCGCUggcUGGCCGGGCAcAAaaaCUCGu -3'
miRNA:   3'- -CGUGAaauGCCGGUCCGU-UUg--GAGCc -5'
6736 3' -51.8 NC_001875.2 + 94636 0.68 0.944309
Target:  5'- uGCACcgcUGC-GCCAGGCuuuCCUCGa -3'
miRNA:   3'- -CGUGaa-AUGcCGGUCCGuuuGGAGCc -5'
6736 3' -51.8 NC_001875.2 + 91187 0.68 0.953056
Target:  5'- gGCGCUUgcguguuguUGGUCGGGUccGCCUCGu -3'
miRNA:   3'- -CGUGAAau-------GCCGGUCCGuuUGGAGCc -5'
6736 3' -51.8 NC_001875.2 + 66111 0.73 0.774864
Target:  5'- cGCGCggcggGCGGCgAGGCGGcgccGCCcgCGGa -3'
miRNA:   3'- -CGUGaaa--UGCCGgUCCGUU----UGGa-GCC- -5'
6736 3' -51.8 NC_001875.2 + 23172 0.71 0.846876
Target:  5'- gGCACg--GCGGCUgcGGGCAcGGCCguuggCGGu -3'
miRNA:   3'- -CGUGaaaUGCCGG--UCCGU-UUGGa----GCC- -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.