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
31732 3' -54.9 NC_006938.1 + 61375 0.67 0.758098
Target:  5'- cUCGCCccaguUGGCGAUCUUCAcGUCUu -3'
miRNA:   3'- -AGUGGcagu-ACCGCUAGAGGUcCAGG- -5'
31732 3' -54.9 NC_006938.1 + 58183 0.67 0.747917
Target:  5'- aCGCCaaCGUGGCGcUCgUCGGGUCUc -3'
miRNA:   3'- aGUGGcaGUACCGCuAGaGGUCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 52748 0.67 0.758098
Target:  5'- cUCGCgCGUCuUGcCGAUCUUCucgaaguGGUCCg -3'
miRNA:   3'- -AGUG-GCAGuACcGCUAGAGGu------CCAGG- -5'
31732 3' -54.9 NC_006938.1 + 52633 0.68 0.684819
Target:  5'- -gGCuCGUCGcGGCGAUgUCCuuuGGGUUCu -3'
miRNA:   3'- agUG-GCAGUaCCGCUAgAGG---UCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 48950 0.7 0.554346
Target:  5'- -gACCGUCGgcagccagccaucUGGCaGGUCUgccaUCAGGUCCc -3'
miRNA:   3'- agUGGCAGU-------------ACCG-CUAGA----GGUCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 46397 1.12 0.000843
Target:  5'- aUCACCGUCAUGGCGAUCUCCAGGUCCu -3'
miRNA:   3'- -AGUGGCAGUACCGCUAGAGGUCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 45413 0.66 0.806911
Target:  5'- -uGCCcuucuUCAUGGCG-UCcUCGGGUCCc -3'
miRNA:   3'- agUGGc----AGUACCGCuAGaGGUCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 44915 0.67 0.746892
Target:  5'- cCGCCaUCAucUGGUGGUUguccgugUCCGGGUCg -3'
miRNA:   3'- aGUGGcAGU--ACCGCUAG-------AGGUCCAGg -5'
31732 3' -54.9 NC_006938.1 + 41791 0.69 0.60911
Target:  5'- aUACCgGUCcgGGU--UgUCCGGGUCCa -3'
miRNA:   3'- aGUGG-CAGuaCCGcuAgAGGUCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 39590 0.68 0.66328
Target:  5'- gCACCGUCcgggAUGGUGccCUCCuuGGUCg -3'
miRNA:   3'- aGUGGCAG----UACCGCuaGAGGu-CCAGg -5'
31732 3' -54.9 NC_006938.1 + 39308 0.72 0.433958
Target:  5'- gUCGaaGUCcauGUGGCGGUCggUCCGGGUgCCg -3'
miRNA:   3'- -AGUggCAG---UACCGCUAG--AGGUCCA-GG- -5'
31732 3' -54.9 NC_006938.1 + 39215 0.7 0.544816
Target:  5'- cUCcCCGUCcagggacUGGaCGAUCUCCAcGUCCu -3'
miRNA:   3'- -AGuGGCAGu------ACC-GCUAGAGGUcCAGG- -5'
31732 3' -54.9 NC_006938.1 + 30036 0.68 0.684819
Target:  5'- gUCGCCGaCGUGGU---CUUCAGcGUCCg -3'
miRNA:   3'- -AGUGGCaGUACCGcuaGAGGUC-CAGG- -5'
31732 3' -54.9 NC_006938.1 + 27928 0.67 0.758098
Target:  5'- aCACC-UC--GGCGGacuUCUCCAGGccUCCg -3'
miRNA:   3'- aGUGGcAGuaCCGCU---AGAGGUCC--AGG- -5'
31732 3' -54.9 NC_006938.1 + 24967 0.68 0.69552
Target:  5'- gUugCGgcUCAgacgaacuGCGAUCUCCuGGUCCg -3'
miRNA:   3'- aGugGC--AGUac------CGCUAGAGGuCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 22185 0.67 0.758098
Target:  5'- --cCCGUCGaGGCGAaccaugccgaUCacagUCAGGUCCa -3'
miRNA:   3'- aguGGCAGUaCCGCU----------AGa---GGUCCAGG- -5'
31732 3' -54.9 NC_006938.1 + 20682 0.7 0.566061
Target:  5'- cCGCCGcCGUGGUGAgaaCCAGGgacaggCCg -3'
miRNA:   3'- aGUGGCaGUACCGCUagaGGUCCa-----GG- -5'
31732 3' -54.9 NC_006938.1 + 20557 0.66 0.787847
Target:  5'- -gGCgGUCAcauaGGgGAUCgucgCCAGGUCg -3'
miRNA:   3'- agUGgCAGUa---CCgCUAGa---GGUCCAGg -5'
31732 3' -54.9 NC_006938.1 + 18668 0.67 0.747917
Target:  5'- -gGCgGaCAUGGCcggGAUCUCCAGGaaggaggCCa -3'
miRNA:   3'- agUGgCaGUACCG---CUAGAGGUCCa------GG- -5'
31732 3' -54.9 NC_006938.1 + 17595 0.67 0.741753
Target:  5'- gCACCGUcCGUGGUGuUUUCCgugauggcauagaccAGGUUCu -3'
miRNA:   3'- aGUGGCA-GUACCGCuAGAGG---------------UCCAGG- -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.