miRNA display CGI


Results 1 - 20 of 25 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
18372 5' -53.6 NC_004681.1 + 48442 0.66 0.888897
Target:  5'- aCCUuguUGGCCAcguccauuucgaUCACCGGgguuccgccguUGAGGGUCa -3'
miRNA:   3'- cGGG---ACUGGU------------AGUGGCU-----------ACUUCCAGa -5'
18372 5' -53.6 NC_004681.1 + 27498 0.66 0.888897
Target:  5'- aCCCUGACCuggggcaCGCCucaGAUcGAGGUCg -3'
miRNA:   3'- cGGGACUGGua-----GUGG---CUAcUUCCAGa -5'
18372 5' -53.6 NC_004681.1 + 10502 0.66 0.887447
Target:  5'- uCCUUGACCcaGUCGCCGGgagucgacggagGAcGGUCa -3'
miRNA:   3'- cGGGACUGG--UAGUGGCUa-----------CUuCCAGa -5'
18372 5' -53.6 NC_004681.1 + 64782 0.66 0.87395
Target:  5'- aGUCCgUGGCCAUCACaCGAgccuuGGGUa- -3'
miRNA:   3'- -CGGG-ACUGGUAGUG-GCUacu--UCCAga -5'
18372 5' -53.6 NC_004681.1 + 38802 0.66 0.87395
Target:  5'- aCCCUGGCgAUgGCCGGaaGGAGuGUCa -3'
miRNA:   3'- cGGGACUGgUAgUGGCUa-CUUC-CAGa -5'
18372 5' -53.6 NC_004681.1 + 53102 0.66 0.858024
Target:  5'- aCCCgaguggcGGCCGU-GCCGGUGuucuGGGUCUg -3'
miRNA:   3'- cGGGa------CUGGUAgUGGCUACu---UCCAGA- -5'
18372 5' -53.6 NC_004681.1 + 9520 0.66 0.858024
Target:  5'- -aCC-GGCCAUCACaag-GAAGGUCg -3'
miRNA:   3'- cgGGaCUGGUAGUGgcuaCUUCCAGa -5'
18372 5' -53.6 NC_004681.1 + 53707 0.66 0.849712
Target:  5'- uGUCCaUGACCGUCGCCGAccuc-GUCg -3'
miRNA:   3'- -CGGG-ACUGGUAGUGGCUacuucCAGa -5'
18372 5' -53.6 NC_004681.1 + 73254 0.66 0.849712
Target:  5'- uUCCa-GCCAUUGCCGGUGAggauggGGGUCUc -3'
miRNA:   3'- cGGGacUGGUAGUGGCUACU------UCCAGA- -5'
18372 5' -53.6 NC_004681.1 + 57727 0.68 0.765952
Target:  5'- -gCCUGGCCGggggCGCCGAUGccGGg-- -3'
miRNA:   3'- cgGGACUGGUa---GUGGCUACuuCCaga -5'
18372 5' -53.6 NC_004681.1 + 40975 0.68 0.765952
Target:  5'- gGCCUUGACC-UCGCCGAgcuccuugUGGAcGUCc -3'
miRNA:   3'- -CGGGACUGGuAGUGGCU--------ACUUcCAGa -5'
18372 5' -53.6 NC_004681.1 + 721 0.68 0.752772
Target:  5'- uGCUCUGcACCAcgguucucuucuggUCugCGGUGAGGG-CUa -3'
miRNA:   3'- -CGGGAC-UGGU--------------AGugGCUACUUCCaGA- -5'
18372 5' -53.6 NC_004681.1 + 66942 0.69 0.735234
Target:  5'- gGCCCUGguGCCGcgCGCCGAgcucGAAGG-Cg -3'
miRNA:   3'- -CGGGAC--UGGUa-GUGGCUa---CUUCCaGa -5'
18372 5' -53.6 NC_004681.1 + 47718 0.69 0.728972
Target:  5'- uGCCCgcggGGCCGUCgcuggucccguuguuGCCGccguUGAAGGUUUu -3'
miRNA:   3'- -CGGGa---CUGGUAG---------------UGGCu---ACUUCCAGA- -5'
18372 5' -53.6 NC_004681.1 + 36362 0.69 0.724778
Target:  5'- gGCCUUGAgCCAgcgCACCGcgGAGGuguGUCg -3'
miRNA:   3'- -CGGGACU-GGUa--GUGGCuaCUUC---CAGa -5'
18372 5' -53.6 NC_004681.1 + 16231 0.69 0.714231
Target:  5'- cGCCCUGgugacGCCAUcCGCCugaGUGAucAGGUCg -3'
miRNA:   3'- -CGGGAC-----UGGUA-GUGGc--UACU--UCCAGa -5'
18372 5' -53.6 NC_004681.1 + 14784 0.69 0.703605
Target:  5'- cGCCCUGGCCAUC-CUGA---AGG-CUg -3'
miRNA:   3'- -CGGGACUGGUAGuGGCUacuUCCaGA- -5'
18372 5' -53.6 NC_004681.1 + 67022 0.69 0.692911
Target:  5'- cGCgCaGACCuUCAUCGGUGAuGGUCa -3'
miRNA:   3'- -CGgGaCUGGuAGUGGCUACUuCCAGa -5'
18372 5' -53.6 NC_004681.1 + 46971 0.7 0.660527
Target:  5'- aGCCCgaUGACgAU-ACCGA-GAAGGUCUc -3'
miRNA:   3'- -CGGG--ACUGgUAgUGGCUaCUUCCAGA- -5'
18372 5' -53.6 NC_004681.1 + 47013 0.7 0.657272
Target:  5'- gGCCCUGACCAUCcccACCGAcGAgcccgaccccgacgAGGa-- -3'
miRNA:   3'- -CGGGACUGGUAG---UGGCUaCU--------------UCCaga -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.