miRNA display CGI


Results 1 - 20 of 33 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
1505 3' -53.8 NC_001335.1 + 40250 0.65 0.827654
Target:  5'- aGCaGGUGCUGGG-CGCucugaucaagacgaAGCcgACCGUCUg -3'
miRNA:   3'- -CG-CUAUGGCCUaGCG--------------UCGa-UGGCAGG- -5'
1505 3' -53.8 NC_001335.1 + 1770 0.66 0.821251
Target:  5'- cCGAgGCCGGcuGUCGgAGC-GCCGUUg -3'
miRNA:   3'- cGCUaUGGCC--UAGCgUCGaUGGCAGg -5'
1505 3' -53.8 NC_001335.1 + 24130 0.66 0.821251
Target:  5'- gGCGGUGCUGGcgcUCGCGGCcagGCgugGUUCu -3'
miRNA:   3'- -CGCUAUGGCCu--AGCGUCGa--UGg--CAGG- -5'
1505 3' -53.8 NC_001335.1 + 13279 0.66 0.811935
Target:  5'- cGgGAUGCCGGuauUCGaCGGCc-UgGUCCg -3'
miRNA:   3'- -CgCUAUGGCCu--AGC-GUCGauGgCAGG- -5'
1505 3' -53.8 NC_001335.1 + 19343 0.66 0.792745
Target:  5'- cGUGA-GCCGGAggGUAaCUACCuGUCCc -3'
miRNA:   3'- -CGCUaUGGCCUagCGUcGAUGG-CAGG- -5'
1505 3' -53.8 NC_001335.1 + 48812 0.66 0.792745
Target:  5'- cGCGGcgACCGGA-CGCGGUaGCUucUCCg -3'
miRNA:   3'- -CGCUa-UGGCCUaGCGUCGaUGGc-AGG- -5'
1505 3' -53.8 NC_001335.1 + 23019 0.66 0.782893
Target:  5'- uGgGGUGCUGGAUCGaucuucGCUcugACCG-CCg -3'
miRNA:   3'- -CgCUAUGGCCUAGCgu----CGA---UGGCaGG- -5'
1505 3' -53.8 NC_001335.1 + 39276 0.66 0.782893
Target:  5'- cGgGGUACCGGGU-GCAGa-ACCGUa- -3'
miRNA:   3'- -CgCUAUGGCCUAgCGUCgaUGGCAgg -5'
1505 3' -53.8 NC_001335.1 + 46550 0.67 0.772885
Target:  5'- cCGGUcgUGGAUCGCAgGCUucgcccagGCCGUCa -3'
miRNA:   3'- cGCUAugGCCUAGCGU-CGA--------UGGCAGg -5'
1505 3' -53.8 NC_001335.1 + 19289 0.67 0.76273
Target:  5'- aCGAgGCCGuGGUCGC-GCUGCUGggggCUa -3'
miRNA:   3'- cGCUaUGGC-CUAGCGuCGAUGGCa---GG- -5'
1505 3' -53.8 NC_001335.1 + 11205 0.67 0.730449
Target:  5'- uGCGuucgACCcgucucaGGGUCGCGGCgguaaGCCG-CCg -3'
miRNA:   3'- -CGCua--UGG-------CCUAGCGUCGa----UGGCaGG- -5'
1505 3' -53.8 NC_001335.1 + 21546 0.68 0.720885
Target:  5'- aGCGAUaGCCGaGGUCGUggAGUgaccCCGUUCa -3'
miRNA:   3'- -CGCUA-UGGC-CUAGCG--UCGau--GGCAGG- -5'
1505 3' -53.8 NC_001335.1 + 35414 0.68 0.720885
Target:  5'- cGgGAUGcCCGGuUCGgAGCUguACCGggCCg -3'
miRNA:   3'- -CgCUAU-GGCCuAGCgUCGA--UGGCa-GG- -5'
1505 3' -53.8 NC_001335.1 + 35912 0.68 0.710174
Target:  5'- cGCGAcuuguuCCaGGAgCGCAGCcacUACuCGUCCg -3'
miRNA:   3'- -CGCUau----GG-CCUaGCGUCG---AUG-GCAGG- -5'
1505 3' -53.8 NC_001335.1 + 50246 0.68 0.688533
Target:  5'- gGCGAUACCuacGGUgGC-GUUGCCGcCCu -3'
miRNA:   3'- -CGCUAUGGc--CUAgCGuCGAUGGCaGG- -5'
1505 3' -53.8 NC_001335.1 + 10324 0.68 0.687445
Target:  5'- uGCGggGCCGGAUCGUucuugacAGC-GCCGa-- -3'
miRNA:   3'- -CGCuaUGGCCUAGCG-------UCGaUGGCagg -5'
1505 3' -53.8 NC_001335.1 + 3579 0.69 0.644688
Target:  5'- aGCGAgACCGGAUgcaCGaCAGCguuuCCGgcUCCg -3'
miRNA:   3'- -CGCUaUGGCCUA---GC-GUCGau--GGC--AGG- -5'
1505 3' -53.8 NC_001335.1 + 22480 0.69 0.633671
Target:  5'- -gGAUGCCGGuagcugcauUCGaGGCUGCgGUCUg -3'
miRNA:   3'- cgCUAUGGCCu--------AGCgUCGAUGgCAGG- -5'
1505 3' -53.8 NC_001335.1 + 48277 0.69 0.611644
Target:  5'- cGCGccGUACCuuGUCGCGGCcgGCCGgCCg -3'
miRNA:   3'- -CGC--UAUGGccUAGCGUCGa-UGGCaGG- -5'
1505 3' -53.8 NC_001335.1 + 29424 0.69 0.611644
Target:  5'- uCGAUcACCGGcaucccggCGCAgacGCUGCCGUCg -3'
miRNA:   3'- cGCUA-UGGCCua------GCGU---CGAUGGCAGg -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.