miRNA display CGI


Results 1 - 20 of 48 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
12994 3' -54.2 NC_003387.1 + 48741 1.13 0.00076
Target:  5'- cCGCCUCAAUCCUCGGGAACGUCACGCa -3'
miRNA:   3'- -GCGGAGUUAGGAGCCCUUGCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 12169 0.84 0.084374
Target:  5'- gCGCCUCGAacgCCUCGGGG--GUCACGCc -3'
miRNA:   3'- -GCGGAGUUa--GGAGCCCUugCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 23032 0.76 0.259338
Target:  5'- gCGCCUCGA-CCUCGGccACGUCgACGUc -3'
miRNA:   3'- -GCGGAGUUaGGAGCCcuUGCAG-UGCG- -5'
12994 3' -54.2 NC_003387.1 + 34519 0.75 0.294326
Target:  5'- gCGCCgCGAUCCUCGGGcugccCGUCGaccCGCu -3'
miRNA:   3'- -GCGGaGUUAGGAGCCCuu---GCAGU---GCG- -5'
12994 3' -54.2 NC_003387.1 + 49694 0.74 0.356895
Target:  5'- gCGCCUUca-CCUCGGGAucuucaaACGUCcacACGCg -3'
miRNA:   3'- -GCGGAGuuaGGAGCCCU-------UGCAG---UGCG- -5'
12994 3' -54.2 NC_003387.1 + 17102 0.74 0.357744
Target:  5'- cCGCCUCGGcgggcUCCUCGGGGcCGUaggcgauCGCu -3'
miRNA:   3'- -GCGGAGUU-----AGGAGCCCUuGCAgu-----GCG- -5'
12994 3' -54.2 NC_003387.1 + 50573 0.73 0.392863
Target:  5'- gCGgCUCAucgaGUCCUCGGGGaacuccACGUCGgcCGCu -3'
miRNA:   3'- -GCgGAGU----UAGGAGCCCU------UGCAGU--GCG- -5'
12994 3' -54.2 NC_003387.1 + 50451 0.72 0.420629
Target:  5'- gCGcCCUCGGgcaCCUCGGG-GCGccCACGCa -3'
miRNA:   3'- -GC-GGAGUUa--GGAGCCCuUGCa-GUGCG- -5'
12994 3' -54.2 NC_003387.1 + 1754 0.72 0.459429
Target:  5'- gGCCgcuAUCggCUCGGGGGCGcuUCGCGCu -3'
miRNA:   3'- gCGGaguUAG--GAGCCCUUGC--AGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 27674 0.72 0.459429
Target:  5'- gGCCgUCAG-CCgCGGGuAACGgUCACGCa -3'
miRNA:   3'- gCGG-AGUUaGGaGCCC-UUGC-AGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 10426 0.71 0.510457
Target:  5'- aCGCCUUGAUCgUCGGG-GCGaaauagucgCACGUa -3'
miRNA:   3'- -GCGGAGUUAGgAGCCCuUGCa--------GUGCG- -5'
12994 3' -54.2 NC_003387.1 + 31175 0.7 0.531531
Target:  5'- uGCCUCGGUgC-CGGGcggcACGUCgaACGCg -3'
miRNA:   3'- gCGGAGUUAgGaGCCCu---UGCAG--UGCG- -5'
12994 3' -54.2 NC_003387.1 + 26218 0.7 0.531531
Target:  5'- gGCCUCGcacUCCUCGGGcAGCG-CAuucuuagcCGCa -3'
miRNA:   3'- gCGGAGUu--AGGAGCCC-UUGCaGU--------GCG- -5'
12994 3' -54.2 NC_003387.1 + 11852 0.7 0.542186
Target:  5'- uCGCCgcggaAAUCCgaccacauugugUCGGuGAgcGCGUCGCGCa -3'
miRNA:   3'- -GCGGag---UUAGG------------AGCC-CU--UGCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 1295 0.7 0.552911
Target:  5'- gCGCCUCGAcgCCcuggCGGGcGACGUCgACGa -3'
miRNA:   3'- -GCGGAGUUa-GGa---GCCC-UUGCAG-UGCg -5'
12994 3' -54.2 NC_003387.1 + 51165 0.7 0.574541
Target:  5'- gCGCUUCGccGUCCUCGGGGccgaggucgaacAgGUCGUGCc -3'
miRNA:   3'- -GCGGAGU--UAGGAGCCCU------------UgCAGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 44849 0.7 0.577803
Target:  5'- cCGaCCUCAAggucggugccguagCCgUCGGGGGCGUCggcgauuccgccuGCGCg -3'
miRNA:   3'- -GC-GGAGUUa-------------GG-AGCCCUUGCAG-------------UGCG- -5'
12994 3' -54.2 NC_003387.1 + 51431 0.69 0.585431
Target:  5'- cCGCCUCGAaCUgcgcCGGucGAACGcCGCGCa -3'
miRNA:   3'- -GCGGAGUUaGGa---GCC--CUUGCaGUGCG- -5'
12994 3' -54.2 NC_003387.1 + 36843 0.69 0.629291
Target:  5'- uGuCCUC-GUCCUCGGGcagccacAUGUaCGCGCg -3'
miRNA:   3'- gC-GGAGuUAGGAGCCCu------UGCA-GUGCG- -5'
12994 3' -54.2 NC_003387.1 + 35523 0.69 0.629291
Target:  5'- uGCCUCGG-CCUCGGccACuuUCGCGCc -3'
miRNA:   3'- gCGGAGUUaGGAGCCcuUGc-AGUGCG- -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.