miRNA display CGI


Results 1 - 20 of 58 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
23658 3' -55.5 NC_005261.1 + 362 0.67 0.858279
Target:  5'- cGGCCCGGCggCGguggcggCGGUGGCGGcgGCg -3'
miRNA:   3'- -UCGGGCCGgaGCa------GCUACUGUUagUG- -5'
23658 3' -55.5 NC_005261.1 + 555 0.71 0.650773
Target:  5'- cGGCUCGGCCgccgCG-CGGUGACAcuaCGCu -3'
miRNA:   3'- -UCGGGCCGGa---GCaGCUACUGUua-GUG- -5'
23658 3' -55.5 NC_005261.1 + 1094 0.69 0.780572
Target:  5'- gAGCCCGG-CUCGUCGuccGAgGA-CGCg -3'
miRNA:   3'- -UCGGGCCgGAGCAGCua-CUgUUaGUG- -5'
23658 3' -55.5 NC_005261.1 + 4423 0.66 0.913466
Target:  5'- gGGCCaGGCCUCGcCGGagGGC-GUCAg -3'
miRNA:   3'- -UCGGgCCGGAGCaGCUa-CUGuUAGUg -5'
23658 3' -55.5 NC_005261.1 + 6419 0.72 0.568271
Target:  5'- uGGCCCGGCCugcUCG-CGAgGGCGGUC-Cg -3'
miRNA:   3'- -UCGGGCCGG---AGCaGCUaCUGUUAGuG- -5'
23658 3' -55.5 NC_005261.1 + 10022 0.68 0.833991
Target:  5'- cGGgCgGGCCUCGcgUCGggGGCGcUCGCu -3'
miRNA:   3'- -UCgGgCCGGAGC--AGCuaCUGUuAGUG- -5'
23658 3' -55.5 NC_005261.1 + 11918 0.67 0.873438
Target:  5'- cGGCCCGGCCggCGgcugCGgcGGCccgCGCc -3'
miRNA:   3'- -UCGGGCCGGa-GCa---GCuaCUGuuaGUG- -5'
23658 3' -55.5 NC_005261.1 + 12752 0.66 0.907386
Target:  5'- gGGCCCGGCgaggUCGUaGgcGGCGGUgGCg -3'
miRNA:   3'- -UCGGGCCGg---AGCAgCuaCUGUUAgUG- -5'
23658 3' -55.5 NC_005261.1 + 14118 0.66 0.913466
Target:  5'- gGGCgUCGG-CUCGggCGGUGgGCAGUCGCu -3'
miRNA:   3'- -UCG-GGCCgGAGCa-GCUAC-UGUUAGUG- -5'
23658 3' -55.5 NC_005261.1 + 14361 0.7 0.722265
Target:  5'- cAGCCgCGGCCggggCGgcgCGGUGGCccgcAUCGCc -3'
miRNA:   3'- -UCGG-GCCGGa---GCa--GCUACUGu---UAGUG- -5'
23658 3' -55.5 NC_005261.1 + 15318 0.69 0.761581
Target:  5'- gAGCCgGGCC-CGUCGAagccgUGcACAAaCGCg -3'
miRNA:   3'- -UCGGgCCGGaGCAGCU-----AC-UGUUaGUG- -5'
23658 3' -55.5 NC_005261.1 + 21677 0.66 0.91227
Target:  5'- uGCuCCGGCUggggcucgagcgCGUCGcgGGCGAgcgcuUCACg -3'
miRNA:   3'- uCG-GGCCGGa-----------GCAGCuaCUGUU-----AGUG- -5'
23658 3' -55.5 NC_005261.1 + 23165 0.66 0.913466
Target:  5'- gGGCCCGGCaggcgCGcCGggGGCGAcaGCg -3'
miRNA:   3'- -UCGGGCCGga---GCaGCuaCUGUUagUG- -5'
23658 3' -55.5 NC_005261.1 + 29330 0.7 0.702094
Target:  5'- cGCCCGGCCgcgugcgcuUCGgcggCGcgGGCGAcacUCGCg -3'
miRNA:   3'- uCGGGCCGG---------AGCa---GCuaCUGUU---AGUG- -5'
23658 3' -55.5 NC_005261.1 + 30779 0.66 0.887712
Target:  5'- gAGCCCGGCCgCGgCGGUGGagg-UGCu -3'
miRNA:   3'- -UCGGGCCGGaGCaGCUACUguuaGUG- -5'
23658 3' -55.5 NC_005261.1 + 31256 0.7 0.691913
Target:  5'- cGCCCGGCgCUCGccuUCGAccccgaggcgcUGGCcgaGAUCGCg -3'
miRNA:   3'- uCGGGCCG-GAGC---AGCU-----------ACUG---UUAGUG- -5'
23658 3' -55.5 NC_005261.1 + 31744 0.68 0.816848
Target:  5'- uGGCCCGGCC--GUCG--GGCAGgcgCACg -3'
miRNA:   3'- -UCGGGCCGGagCAGCuaCUGUUa--GUG- -5'
23658 3' -55.5 NC_005261.1 + 41354 0.66 0.887712
Target:  5'- cAGCUucuUGaGCCUCGU-GGUGACcGUCACc -3'
miRNA:   3'- -UCGG---GC-CGGAGCAgCUACUGuUAGUG- -5'
23658 3' -55.5 NC_005261.1 + 42124 1.1 0.002341
Target:  5'- cAGCCCGGCCUCGUCGAUGACAAUCACg -3'
miRNA:   3'- -UCGGGCCGGAGCAGCUACUGUUAGUG- -5'
23658 3' -55.5 NC_005261.1 + 43378 0.67 0.850383
Target:  5'- cGGCaUCGGCCUCG-CGGUGcCGG-CACc -3'
miRNA:   3'- -UCG-GGCCGGAGCaGCUACuGUUaGUG- -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.