miRNA display CGI


Results 1 - 19 of 19 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
28784 3' -53.5 NC_006146.1 + 93156 0.66 0.976435
Target:  5'- cUCUGCGGCACuau--CCGGGUCAc-- -3'
miRNA:   3'- -GGACGCCGUGugcacGGUCUAGUaac -5'
28784 3' -53.5 NC_006146.1 + 57484 0.66 0.976435
Target:  5'- uCCcGCGG---GCGaUGCCAGAUCAUg- -3'
miRNA:   3'- -GGaCGCCgugUGC-ACGGUCUAGUAac -5'
28784 3' -53.5 NC_006146.1 + 18418 0.66 0.976435
Target:  5'- cCCUcacaaGGCGCACGcGCCAGAUg---- -3'
miRNA:   3'- -GGAcg---CCGUGUGCaCGGUCUAguaac -5'
28784 3' -53.5 NC_006146.1 + 134274 0.67 0.961478
Target:  5'- uUCUGUGGCAgAauuuaaaaGUGggggcCCGGGUCAUUGg -3'
miRNA:   3'- -GGACGCCGUgUg-------CAC-----GGUCUAGUAAC- -5'
28784 3' -53.5 NC_006146.1 + 6175 0.67 0.949871
Target:  5'- gCCUGCGGaCAUugG-GCCcuGGAUUAg-- -3'
miRNA:   3'- -GGACGCC-GUGugCaCGG--UCUAGUaac -5'
28784 3' -53.5 NC_006146.1 + 49770 0.67 0.947298
Target:  5'- --cGCGGUAgucccgcucgaugcuCGCGUGCCGGAU-GUUGa -3'
miRNA:   3'- ggaCGCCGU---------------GUGCACGGUCUAgUAAC- -5'
28784 3' -53.5 NC_006146.1 + 155697 0.68 0.940959
Target:  5'- uCCUGCGG-ACGCGUG-UGGGUCcUUGu -3'
miRNA:   3'- -GGACGCCgUGUGCACgGUCUAGuAAC- -5'
28784 3' -53.5 NC_006146.1 + 143386 0.68 0.940959
Target:  5'- uCCUGCGG-ACGCGUG-UGGGUCcUUGu -3'
miRNA:   3'- -GGACGCCgUGUGCACgGUCUAGuAAC- -5'
28784 3' -53.5 NC_006146.1 + 146464 0.68 0.940959
Target:  5'- uCCUGCGG-ACGCGUG-UGGGUCcUUGu -3'
miRNA:   3'- -GGACGCCgUGUGCACgGUCUAGuAAC- -5'
28784 3' -53.5 NC_006146.1 + 149542 0.68 0.940959
Target:  5'- uCCUGCGG-ACGCGUG-UGGGUCcUUGu -3'
miRNA:   3'- -GGACGCCgUGUGCACgGUCUAGuAAC- -5'
28784 3' -53.5 NC_006146.1 + 152620 0.68 0.940959
Target:  5'- uCCUGCGG-ACGCGUG-UGGGUCcUUGu -3'
miRNA:   3'- -GGACGCCgUGUGCACgGUCUAGuAAC- -5'
28784 3' -53.5 NC_006146.1 + 84222 0.68 0.936141
Target:  5'- -aUGCGGU--AUGUGCUAGAUCAc-- -3'
miRNA:   3'- ggACGCCGugUGCACGGUCUAGUaac -5'
28784 3' -53.5 NC_006146.1 + 41226 0.68 0.936141
Target:  5'- aCUG-GGCGCGCGUGgCCAGG-CGa-- -3'
miRNA:   3'- gGACgCCGUGUGCAC-GGUCUaGUaac -5'
28784 3' -53.5 NC_006146.1 + 21236 0.68 0.931081
Target:  5'- gCCUGCaaguucgugcaGGCGCGC-UGCCGGcgCGUg- -3'
miRNA:   3'- -GGACG-----------CCGUGUGcACGGUCuaGUAac -5'
28784 3' -53.5 NC_006146.1 + 33091 0.69 0.908401
Target:  5'- cCCUGCGGCuCugGggcaGCCGGGUgGc-- -3'
miRNA:   3'- -GGACGCCGuGugCa---CGGUCUAgUaac -5'
28784 3' -53.5 NC_006146.1 + 19404 0.69 0.881887
Target:  5'- gCUGCaggacaaGCACGgGUGCCAGAUCu--- -3'
miRNA:   3'- gGACGc------CGUGUgCACGGUCUAGuaac -5'
28784 3' -53.5 NC_006146.1 + 108312 0.72 0.763339
Target:  5'- gCCUGCGGCGgACGccauuucggGCCAGAaCGUa- -3'
miRNA:   3'- -GGACGCCGUgUGCa--------CGGUCUaGUAac -5'
28784 3' -53.5 NC_006146.1 + 167412 0.78 0.434429
Target:  5'- cUCUGCGGUggAUACGggggaaGCCAGGUCGUUGa -3'
miRNA:   3'- -GGACGCCG--UGUGCa-----CGGUCUAGUAAC- -5'
28784 3' -53.5 NC_006146.1 + 121077 1.1 0.005054
Target:  5'- gCCUGCGGCACACGUGCCAGAUCAUUGc -3'
miRNA:   3'- -GGACGCCGUGUGCACGGUCUAGUAAC- -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.