miRNA display CGI


Results 1 - 16 of 16 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
12991 3' -54.1 NC_003387.1 + 35613 0.66 0.782253
Target:  5'- cGCcuACGGccccgAGGAGCCCGcCGAGGc- -3'
miRNA:   3'- -CGu-UGCCcua--UCCUCGGGU-GCUCUac -5'
12991 3' -54.1 NC_003387.1 + 27124 0.66 0.76188
Target:  5'- gGCAcuGCGGGucgAGGccguGCCCGcCGGGGUc -3'
miRNA:   3'- -CGU--UGCCCua-UCCu---CGGGU-GCUCUAc -5'
12991 3' -54.1 NC_003387.1 + 18882 0.66 0.76188
Target:  5'- aGCu-CGGGGUcgaucaggcucGGGAucuuGCCCAgCGGGAUGc -3'
miRNA:   3'- -CGuuGCCCUA-----------UCCU----CGGGU-GCUCUAC- -5'
12991 3' -54.1 NC_003387.1 + 46309 0.67 0.734596
Target:  5'- cGCAGCGGGccgcUGGGAagggcaagcggggccGCCCACGcaAGGc- -3'
miRNA:   3'- -CGUUGCCCu---AUCCU---------------CGGGUGC--UCUac -5'
12991 3' -54.1 NC_003387.1 + 29932 0.67 0.686915
Target:  5'- aGCAcuACGG-AUAGGAGCCCaaaaugaccacaGCGAcAUGg -3'
miRNA:   3'- -CGU--UGCCcUAUCCUCGGG------------UGCUcUAC- -5'
12991 3' -54.1 NC_003387.1 + 2256 0.68 0.664839
Target:  5'- cCAAgGGGcugcGUGGGcGCCC-CGAGGUGc -3'
miRNA:   3'- cGUUgCCC----UAUCCuCGGGuGCUCUAC- -5'
12991 3' -54.1 NC_003387.1 + 3603 0.68 0.653749
Target:  5'- cGCGACGGGugacagcGGGuGCgCGuCGAGGUGc -3'
miRNA:   3'- -CGUUGCCCua-----UCCuCGgGU-GCUCUAC- -5'
12991 3' -54.1 NC_003387.1 + 29476 0.7 0.554226
Target:  5'- cCAGCGaGcaGGGcacGGCCCGCGAGAUGg -3'
miRNA:   3'- cGUUGCcCuaUCC---UCGGGUGCUCUAC- -5'
12991 3' -54.1 NC_003387.1 + 44344 0.71 0.477902
Target:  5'- cGCAACuGGAUAGGAgacagguGCCCAUGAcaaccgacgacccGGUGg -3'
miRNA:   3'- -CGUUGcCCUAUCCU-------CGGGUGCU-------------CUAC- -5'
12991 3' -54.1 NC_003387.1 + 50616 0.73 0.356834
Target:  5'- aCGAgGGGAUAGGAGCCUACa----- -3'
miRNA:   3'- cGUUgCCCUAUCCUCGGGUGcucuac -5'
12991 3' -54.1 NC_003387.1 + 43727 0.75 0.292866
Target:  5'- aCGGCGGcAUgcGGGAGCCCGCGAGcGUGu -3'
miRNA:   3'- cGUUGCCcUA--UCCUCGGGUGCUC-UAC- -5'
12991 3' -54.1 NC_003387.1 + 48633 0.77 0.214234
Target:  5'- aCAACGGGAUAGGAGCCCcUGcaAUGu -3'
miRNA:   3'- cGUUGCCCUAUCCUCGGGuGCucUAC- -5'
12991 3' -54.1 NC_003387.1 + 40669 0.79 0.154426
Target:  5'- ----aGGGAUAGGAGCCC-CGAGAa- -3'
miRNA:   3'- cguugCCCUAUCCUCGGGuGCUCUac -5'
12991 3' -54.1 NC_003387.1 + 50026 0.83 0.080279
Target:  5'- aCGACGGGAUAGGAGCCCAaaauguacaAGAUGa -3'
miRNA:   3'- cGUUGCCCUAUCCUCGGGUgc-------UCUAC- -5'
12991 3' -54.1 NC_003387.1 + 46452 0.85 0.065481
Target:  5'- ---uCGGGAUAGGAGCCCACGAaAUGa -3'
miRNA:   3'- cguuGCCCUAUCCUCGGGUGCUcUAC- -5'
12991 3' -54.1 NC_003387.1 + 47682 1.11 0.000871
Target:  5'- cGCAACGGGAUAGGAGCCCACGAGAUGa -3'
miRNA:   3'- -CGUUGCCCUAUCCUCGGGUGCUCUAC- -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.