miRNA display CGI


Results 1 - 20 of 32 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
16374 3' -60.7 NC_004084.1 + 56958 0.66 0.517281
Target:  5'- gUCUGGACCGA-GGCgACGgCCgucgaGCCGGa -3'
miRNA:   3'- -GGGUCUGGCUaCCG-UGCgGG-----UGGCCc -5'
16374 3' -60.7 NC_004084.1 + 16518 0.66 0.497561
Target:  5'- gCCGcGACCGGUGGC---CUCACgCGGGu -3'
miRNA:   3'- gGGU-CUGGCUACCGugcGGGUG-GCCC- -5'
16374 3' -60.7 NC_004084.1 + 36089 0.66 0.497561
Target:  5'- aCgAGgucGCCGucuccuacgaGUGGCACgGCCC-CCGGGc -3'
miRNA:   3'- gGgUC---UGGC----------UACCGUG-CGGGuGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 35818 0.66 0.487828
Target:  5'- cUCCGGGCCGAgcacgaaGGCccccccagACGCCgAUCGGc -3'
miRNA:   3'- -GGGUCUGGCUa------CCG--------UGCGGgUGGCCc -5'
16374 3' -60.7 NC_004084.1 + 22458 0.66 0.487828
Target:  5'- gUCgGGACUGGUcacGGC-CGCCgaccccggcgaCGCCGGGg -3'
miRNA:   3'- -GGgUCUGGCUA---CCGuGCGG-----------GUGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 24014 0.66 0.478186
Target:  5'- uCCCAGACggCGAUGG-ACGCggUugCGGGc -3'
miRNA:   3'- -GGGUCUG--GCUACCgUGCGg-GugGCCC- -5'
16374 3' -60.7 NC_004084.1 + 41778 0.66 0.468638
Target:  5'- --aAGACCG--GGaCGCGCUCGCCGGu -3'
miRNA:   3'- gggUCUGGCuaCC-GUGCGGGUGGCCc -5'
16374 3' -60.7 NC_004084.1 + 41775 0.67 0.462957
Target:  5'- uCCCGGACgacgucgacgaCGAgGGCgucACgaucgaccucgaggaGCCCGCCGGGu -3'
miRNA:   3'- -GGGUCUG-----------GCUaCCG---UG---------------CGGGUGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 23349 0.67 0.459189
Target:  5'- uCCUAcucGA-CGAUGGCGacCGCCUGCCGGu -3'
miRNA:   3'- -GGGU---CUgGCUACCGU--GCGGGUGGCCc -5'
16374 3' -60.7 NC_004084.1 + 3753 0.67 0.459189
Target:  5'- gCCAGcCCGGUGG-GCGUgCCAUCGGu -3'
miRNA:   3'- gGGUCuGGCUACCgUGCG-GGUGGCCc -5'
16374 3' -60.7 NC_004084.1 + 35888 0.67 0.440602
Target:  5'- gCCAGuGCCGGUcGG-ACGuCCCGCUGGa -3'
miRNA:   3'- gGGUC-UGGCUA-CCgUGC-GGGUGGCCc -5'
16374 3' -60.7 NC_004084.1 + 20838 0.67 0.43147
Target:  5'- aCCAGaacucgcucGCCGAgggUGGCACGUCgACCGc- -3'
miRNA:   3'- gGGUC---------UGGCU---ACCGUGCGGgUGGCcc -5'
16374 3' -60.7 NC_004084.1 + 22806 0.67 0.42245
Target:  5'- gCUGGGCgGAcuucgucGGguCGCUCGCCGGGa -3'
miRNA:   3'- gGGUCUGgCUa------CCguGCGGGUGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 43752 0.67 0.42245
Target:  5'- aCCCGG-CCGGgacgcucgcgGGCaucgacuggGCGCUCGCCGGcGg -3'
miRNA:   3'- -GGGUCuGGCUa---------CCG---------UGCGGGUGGCC-C- -5'
16374 3' -60.7 NC_004084.1 + 52077 0.68 0.404754
Target:  5'- uCCCAGucCCGc-GGCuucaguucgaACGCCCACUGGu -3'
miRNA:   3'- -GGGUCu-GGCuaCCG----------UGCGGGUGGCCc -5'
16374 3' -60.7 NC_004084.1 + 43842 0.68 0.396084
Target:  5'- gCCCAG-UCGAUGcccGCgaGCGUCCcgGCCGGGu -3'
miRNA:   3'- -GGGUCuGGCUAC---CG--UGCGGG--UGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 5743 0.68 0.396084
Target:  5'- gCgGGAauuaCGAUgacGGCACuGCCCccGCCGGGg -3'
miRNA:   3'- gGgUCUg---GCUA---CCGUG-CGGG--UGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 16850 0.68 0.387534
Target:  5'- -aCGGugCGA-GGaGCGCCauCACCGGGa -3'
miRNA:   3'- ggGUCugGCUaCCgUGCGG--GUGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 12836 0.68 0.379106
Target:  5'- uUCAGACCGA-GGCugaacguguGCGCUCuCUGGGc -3'
miRNA:   3'- gGGUCUGGCUaCCG---------UGCGGGuGGCCC- -5'
16374 3' -60.7 NC_004084.1 + 27733 0.68 0.370802
Target:  5'- gCCAGGCgaGAcgcUGGuCAcCGCCCACCaGGa -3'
miRNA:   3'- gGGUCUGg-CU---ACC-GU-GCGGGUGGcCC- -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.