miRNA display CGI


Results 1 - 20 of 38 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
23322 3' -56.6 NC_005259.1 + 14178 0.66 0.734067
Target:  5'- cGGGCGgguggcaacCGCUCACC-CCcGAGCAGgccgGGa -3'
miRNA:   3'- -CCUGU---------GCGGGUGGcGGaCUCGUUa---CC- -5'
23322 3' -56.6 NC_005259.1 + 37189 0.66 0.727921
Target:  5'- aGGACGagcugcggcccuugcCGCcaccgCCGCCGCCgccgGGGCGcUGGc -3'
miRNA:   3'- -CCUGU---------------GCG-----GGUGGCGGa---CUCGUuACC- -5'
23322 3' -56.6 NC_005259.1 + 23219 0.66 0.713456
Target:  5'- aGGACGgguacCGUCCGCucgaCGCCaaugccaccucgUGGGCGGUGGc -3'
miRNA:   3'- -CCUGU-----GCGGGUG----GCGG------------ACUCGUUACC- -5'
23322 3' -56.6 NC_005259.1 + 26790 0.66 0.712417
Target:  5'- cGGaACACcaGCgCCGCCGCCcGguuggccgguaccGGCGGUGGu -3'
miRNA:   3'- -CC-UGUG--CG-GGUGGCGGaC-------------UCGUUACC- -5'
23322 3' -56.6 NC_005259.1 + 45309 0.66 0.703032
Target:  5'- cGGugACGCcgaggCCGCCGCCgaacuGC-GUGGc -3'
miRNA:   3'- -CCugUGCG-----GGUGGCGGacu--CGuUACC- -5'
23322 3' -56.6 NC_005259.1 + 45743 0.66 0.703032
Target:  5'- aGGC-CGCgCACCGCCUcGGgGAUGa -3'
miRNA:   3'- cCUGuGCGgGUGGCGGAcUCgUUACc -5'
23322 3' -56.6 NC_005259.1 + 43280 0.66 0.703032
Target:  5'- uGACcgcaGCGCCCGCCGCC-GAcGCGc--- -3'
miRNA:   3'- cCUG----UGCGGGUGGCGGaCU-CGUuacc -5'
23322 3' -56.6 NC_005259.1 + 39991 0.66 0.703032
Target:  5'- cGACGgGCUgauCGCCGCC-GAGCAugaGGg -3'
miRNA:   3'- cCUGUgCGG---GUGGCGGaCUCGUua-CC- -5'
23322 3' -56.6 NC_005259.1 + 44660 0.66 0.703032
Target:  5'- cGACucgaACGCCaCACCG-UUGGGCAgcGUGGc -3'
miRNA:   3'- cCUG----UGCGG-GUGGCgGACUCGU--UACC- -5'
23322 3' -56.6 NC_005259.1 + 20257 0.67 0.682
Target:  5'- cGACACGCCg--CGCC-GGGcCGAUGGa -3'
miRNA:   3'- cCUGUGCGGgugGCGGaCUC-GUUACC- -5'
23322 3' -56.6 NC_005259.1 + 63686 0.67 0.671412
Target:  5'- cGGCGCGCCggggauCugCGCCUGcccAGCGG-GGa -3'
miRNA:   3'- cCUGUGCGG------GugGCGGAC---UCGUUaCC- -5'
23322 3' -56.6 NC_005259.1 + 30362 0.67 0.671412
Target:  5'- uGGACGCcgaucuGCCCGCUGCCcG-GCGAgaaaccGGg -3'
miRNA:   3'- -CCUGUG------CGGGUGGCGGaCuCGUUa-----CC- -5'
23322 3' -56.6 NC_005259.1 + 45000 0.67 0.671412
Target:  5'- aGGCAcCGCCgACCGCCgGGGCc---- -3'
miRNA:   3'- cCUGU-GCGGgUGGCGGaCUCGuuacc -5'
23322 3' -56.6 NC_005259.1 + 4002 0.67 0.671412
Target:  5'- cGGGcCGCGUCCcCCGgUUGAGCAGa-- -3'
miRNA:   3'- -CCU-GUGCGGGuGGCgGACUCGUUacc -5'
23322 3' -56.6 NC_005259.1 + 35062 0.67 0.659725
Target:  5'- cGGACACG-CCGCCcuugcugacggugGCCUGcGCAGUc- -3'
miRNA:   3'- -CCUGUGCgGGUGG-------------CGGACuCGUUAcc -5'
23322 3' -56.6 NC_005259.1 + 37467 0.67 0.649075
Target:  5'- uGGCugGCCaCGCCGCCguugGcugacccacccccGGCGGUGa -3'
miRNA:   3'- cCUGugCGG-GUGGCGGa---C-------------UCGUUACc -5'
23322 3' -56.6 NC_005259.1 + 51353 0.67 0.636277
Target:  5'- cGGAUAUGCCCgguggcaccggcacACCGCgCgu-GUAGUGGa -3'
miRNA:   3'- -CCUGUGCGGG--------------UGGCG-GacuCGUUACC- -5'
23322 3' -56.6 NC_005259.1 + 26054 0.68 0.628807
Target:  5'- cGGGUugGCCaUGCCGCCgccGAGCAGUc- -3'
miRNA:   3'- -CCUGugCGG-GUGGCGGa--CUCGUUAcc -5'
23322 3' -56.6 NC_005259.1 + 16408 0.68 0.607485
Target:  5'- gGGACGCaGCCCACCGaggugcCCgucGAGCGGc-- -3'
miRNA:   3'- -CCUGUG-CGGGUGGC------GGa--CUCGUUacc -5'
23322 3' -56.6 NC_005259.1 + 31735 0.68 0.596849
Target:  5'- uGAcCGCGCCUGCCGC--GAGCGcUGGu -3'
miRNA:   3'- cCU-GUGCGGGUGGCGgaCUCGUuACC- -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.