miRNA display CGI


Results 1 - 20 of 21 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
22318 3' -54.2 NC_005045.1 + 41191 0.66 0.711405
Target:  5'- uGGCgCUGGGuguuggUCCUGG-CAGCGAc -3'
miRNA:   3'- uCCG-GGUCCuua---AGGACCuGUUGCUc -5'
22318 3' -54.2 NC_005045.1 + 39369 0.66 0.70475
Target:  5'- aAGGCCCcgAGGGcUUCCagcuucaguacaugcUGGACAccagccucgccgACGAGc -3'
miRNA:   3'- -UCCGGG--UCCUuAAGG---------------ACCUGU------------UGCUC- -5'
22318 3' -54.2 NC_005045.1 + 15109 0.66 0.677886
Target:  5'- cGGCaCCGccGGGAUUaCCgGGACAGcCGGGa -3'
miRNA:   3'- uCCG-GGU--CCUUAA-GGaCCUGUU-GCUC- -5'
22318 3' -54.2 NC_005045.1 + 7774 0.66 0.677886
Target:  5'- uGGCCcCAGGAAUUaucaaUGGGCAggccAUGGGu -3'
miRNA:   3'- uCCGG-GUCCUUAAgg---ACCUGU----UGCUC- -5'
22318 3' -54.2 NC_005045.1 + 33442 0.66 0.667735
Target:  5'- cGGCCCAGGAGgcgccgugcgcccucUCCgggcUGGGCcAgGAGg -3'
miRNA:   3'- uCCGGGUCCUUa--------------AGG----ACCUGuUgCUC- -5'
22318 3' -54.2 NC_005045.1 + 873 0.66 0.65529
Target:  5'- aAGGcCCCAGGGAgcgcCCUGG-CGAgGGu -3'
miRNA:   3'- -UCC-GGGUCCUUaa--GGACCuGUUgCUc -5'
22318 3' -54.2 NC_005045.1 + 26772 0.67 0.611044
Target:  5'- aAGGCCCcgguauacuucgaguGGGAUUCCgcuaaccgccgcUGGGCAgaGCGGGc -3'
miRNA:   3'- -UCCGGGu--------------CCUUAAGG------------ACCUGU--UGCUC- -5'
22318 3' -54.2 NC_005045.1 + 25163 0.67 0.598591
Target:  5'- uGGCaCCAGcGGuaUCC-GGGCGACGGGc -3'
miRNA:   3'- uCCG-GGUC-CUuaAGGaCCUGUUGCUC- -5'
22318 3' -54.2 NC_005045.1 + 41376 0.67 0.598591
Target:  5'- uAGGUCCAGGGcgUCCUGauaggccgcuACAGCGcGGa -3'
miRNA:   3'- -UCCGGGUCCUuaAGGACc---------UGUUGC-UC- -5'
22318 3' -54.2 NC_005045.1 + 29243 0.68 0.587302
Target:  5'- uGuCCCAGGAGgcuacgcacgUCCUGGACucgacCGAGg -3'
miRNA:   3'- uCcGGGUCCUUa---------AGGACCUGuu---GCUC- -5'
22318 3' -54.2 NC_005045.1 + 32624 0.68 0.576053
Target:  5'- aGGGCCUGGGGcagcguaccgcGUUCCguguggugcaGGGCGGCGAc -3'
miRNA:   3'- -UCCGGGUCCU-----------UAAGGa---------CCUGUUGCUc -5'
22318 3' -54.2 NC_005045.1 + 16672 0.68 0.576053
Target:  5'- uGGUCCGGaAGUUCCccggcgccgUGGGCAACGuGg -3'
miRNA:   3'- uCCGGGUCcUUAAGG---------ACCUGUUGCuC- -5'
22318 3' -54.2 NC_005045.1 + 30184 0.68 0.564853
Target:  5'- cGGCCCAGGAGaucaaccccUCCgccGGCAACGuGa -3'
miRNA:   3'- uCCGGGUCCUUa--------AGGac-CUGUUGCuC- -5'
22318 3' -54.2 NC_005045.1 + 32876 0.68 0.560388
Target:  5'- uGGCCCAGGccaugcagacCCUGGAgAACGu- -3'
miRNA:   3'- uCCGGGUCCuuaa------GGACCUgUUGCuc -5'
22318 3' -54.2 NC_005045.1 + 24316 0.69 0.477983
Target:  5'- uGGUCCGccuGGAucgCCUGGGCAACGu- -3'
miRNA:   3'- uCCGGGU---CCUuaaGGACCUGUUGCuc -5'
22318 3' -54.2 NC_005045.1 + 18647 0.7 0.457273
Target:  5'- gAGGCCaGGGAGUUCCUccaGGACcccucGGCGGc -3'
miRNA:   3'- -UCCGGgUCCUUAAGGA---CCUG-----UUGCUc -5'
22318 3' -54.2 NC_005045.1 + 16714 0.7 0.437054
Target:  5'- aGGGUCCgaAGGugcugagCCUGGACAuCGAGa -3'
miRNA:   3'- -UCCGGG--UCCuuaa---GGACCUGUuGCUC- -5'
22318 3' -54.2 NC_005045.1 + 31137 0.71 0.388856
Target:  5'- uGGGCCUGGGGcAUUaCCUGGGCAGUGGc -3'
miRNA:   3'- -UCCGGGUCCU-UAA-GGACCUGUUGCUc -5'
22318 3' -54.2 NC_005045.1 + 41812 0.73 0.288254
Target:  5'- cGGCCCuGGG--UUCUGGcuACAACGAGa -3'
miRNA:   3'- uCCGGGuCCUuaAGGACC--UGUUGCUC- -5'
22318 3' -54.2 NC_005045.1 + 13137 0.73 0.280862
Target:  5'- -uGUCCAGGAAUUCCUGGGCcucuuccACGGu -3'
miRNA:   3'- ucCGGGUCCUUAAGGACCUGu------UGCUc -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.