miRNA display CGI


Results 1 - 20 of 22 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
753 3' -55.7 NC_000852.3 + 227251 0.66 0.983036
Target:  5'- cUCCAGuugUGGCAGCuucGCGGGUgcugggagaggcccgCUUGGCu -3'
miRNA:   3'- -AGGUUcu-GCUGUCG---CGCCCA---------------GAACCG- -5'
753 3' -55.7 NC_000852.3 + 241273 0.66 0.982293
Target:  5'- uUUCGGGGCGGguuuggguuuCGGgGCGGGUUUggguuucggGGCa -3'
miRNA:   3'- -AGGUUCUGCU----------GUCgCGCCCAGAa--------CCG- -5'
753 3' -55.7 NC_000852.3 + 150691 0.66 0.98033
Target:  5'- aCguAGACGAUcuAGCGCGaGGUCUacucaucgucaUGGa -3'
miRNA:   3'- aGguUCUGCUG--UCGCGC-CCAGA-----------ACCg -5'
753 3' -55.7 NC_000852.3 + 188496 0.66 0.978208
Target:  5'- gUCCugGcGCGGguuuaGGCGCGGGUUUaGGUg -3'
miRNA:   3'- -AGGuuC-UGCUg----UCGCGCCCAGAaCCG- -5'
753 3' -55.7 NC_000852.3 + 197938 0.66 0.978208
Target:  5'- ---cGGGCuuUGGUGCGGGUUUUGGUg -3'
miRNA:   3'- agguUCUGcuGUCGCGCCCAGAACCG- -5'
753 3' -55.7 NC_000852.3 + 197693 0.66 0.978208
Target:  5'- uUCgGAG-CGGguuuCGGUGCGGGUUUaggGGCg -3'
miRNA:   3'- -AGgUUCuGCU----GUCGCGCCCAGAa--CCG- -5'
753 3' -55.7 NC_000852.3 + 217323 0.66 0.978208
Target:  5'- uUCCGucuaACG-CAGCGCGGGcUCcagaUUGGUa -3'
miRNA:   3'- -AGGUuc--UGCuGUCGCGCCC-AG----AACCG- -5'
753 3' -55.7 NC_000852.3 + 122090 0.67 0.965014
Target:  5'- cUCCAAGAuaCGACA-CGUaGGagaUCUUGGCa -3'
miRNA:   3'- -AGGUUCU--GCUGUcGCGcCC---AGAACCG- -5'
753 3' -55.7 NC_000852.3 + 239969 0.68 0.958425
Target:  5'- aUCCGAGAgcaaGAcCGGUGUGGGUCUacGGa -3'
miRNA:   3'- -AGGUUCUg---CU-GUCGCGCCCAGAa-CCg -5'
753 3' -55.7 NC_000852.3 + 277560 0.68 0.958075
Target:  5'- -aCAGGACGACgucgugcauaugaAGacaGCGGGUgagaUUGGCg -3'
miRNA:   3'- agGUUCUGCUG-------------UCg--CGCCCAg---AACCG- -5'
753 3' -55.7 NC_000852.3 + 197979 0.68 0.954831
Target:  5'- cUCAGGAC--CAGUcgauGCGGGUUUUGGUg -3'
miRNA:   3'- aGGUUCUGcuGUCG----CGCCCAGAACCG- -5'
753 3' -55.7 NC_000852.3 + 241109 0.68 0.951032
Target:  5'- -gCAGGuCGuauaGGCGCGGGUUcUGGUg -3'
miRNA:   3'- agGUUCuGCug--UCGCGCCCAGaACCG- -5'
753 3' -55.7 NC_000852.3 + 241165 0.68 0.947025
Target:  5'- uUCUGGcGCGGguucUGGCGCGGGUUcUGGCg -3'
miRNA:   3'- -AGGUUcUGCU----GUCGCGCCCAGaACCG- -5'
753 3' -55.7 NC_000852.3 + 302675 0.68 0.942375
Target:  5'- uUCC-AGAC-ACGGaaccuaaUGCGGGUCUUGGa -3'
miRNA:   3'- -AGGuUCUGcUGUC-------GCGCCCAGAACCg -5'
753 3' -55.7 NC_000852.3 + 210030 0.69 0.938379
Target:  5'- gCCGAGuACuGCGGCGgGGGaagUGGCa -3'
miRNA:   3'- aGGUUC-UGcUGUCGCgCCCagaACCG- -5'
753 3' -55.7 NC_000852.3 + 94677 0.69 0.923802
Target:  5'- gCCAGGGCGAguGUGa-GGUCacGGCg -3'
miRNA:   3'- aGGUUCUGCUguCGCgcCCAGaaCCG- -5'
753 3' -55.7 NC_000852.3 + 158776 0.69 0.918512
Target:  5'- gCCuuGGuACGGguuuCGGCGCGGGUUUcGGCg -3'
miRNA:   3'- aGGu-UC-UGCU----GUCGCGCCCAGAaCCG- -5'
753 3' -55.7 NC_000852.3 + 123023 0.7 0.907289
Target:  5'- uUUCGGcGCGGguuuCGGCGCGGGUUUcGGCg -3'
miRNA:   3'- -AGGUUcUGCU----GUCGCGCCCAGAaCCG- -5'
753 3' -55.7 NC_000852.3 + 197574 0.7 0.901359
Target:  5'- uUUCGGcgcuGGCGuCGGCGCGGGUUUcGGUa -3'
miRNA:   3'- -AGGUU----CUGCuGUCGCGCCCAGAaCCG- -5'
753 3' -55.7 NC_000852.3 + 251494 0.7 0.882319
Target:  5'- gCUggGGgaGGCAGCGCgacGGGUCUUagaGGCg -3'
miRNA:   3'- aGGuuCUg-CUGUCGCG---CCCAGAA---CCG- -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.