miRNA display CGI


Results 1 - 20 of 28 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
1357 3' -56.5 NC_001335.1 + 16917 1.1 0.00049
Target:  5'- cGAAGUCAGCGCCGGCAUCAGCGAGACg -3'
miRNA:   3'- -CUUCAGUCGCGGCCGUAGUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 17218 0.75 0.165816
Target:  5'- cGAGGgccgucgcCAGCGCCGGgAUguGCGGGGCc -3'
miRNA:   3'- -CUUCa-------GUCGCGGCCgUAguCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 8720 0.74 0.206091
Target:  5'- --cGUCAGCcucGUCGGCAUCGcCGAGGCg -3'
miRNA:   3'- cuuCAGUCG---CGGCCGUAGUcGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 5593 0.72 0.268053
Target:  5'- -uAGUCuccgguGCGCCGGCcgUAGCGgcAGGCa -3'
miRNA:   3'- cuUCAGu-----CGCGGCCGuaGUCGC--UCUG- -5'
1357 3' -56.5 NC_001335.1 + 11904 0.72 0.29602
Target:  5'- uGAGGUCGGCguuggaGCCGGUgccguccggguccAcCAGCGAGACc -3'
miRNA:   3'- -CUUCAGUCG------CGGCCG-------------UaGUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 17573 0.71 0.327812
Target:  5'- --cGUcCAGgGCCugaucaacGGCAUCGGCGGGAUg -3'
miRNA:   3'- cuuCA-GUCgCGG--------CCGUAGUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 27404 0.7 0.361197
Target:  5'- uGAAGUCGGCGUCuGCcUCggagaGGUGGGACg -3'
miRNA:   3'- -CUUCAGUCGCGGcCGuAG-----UCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 16322 0.7 0.367278
Target:  5'- --cGcCAGCGCCGGCuccgaacgcagacagCAGCGAcGGCa -3'
miRNA:   3'- cuuCaGUCGCGGCCGua-------------GUCGCU-CUG- -5'
1357 3' -56.5 NC_001335.1 + 16254 0.69 0.396877
Target:  5'- cGGAGcCGGCGCUGGCGuagucgcgcUCGGCauGGACg -3'
miRNA:   3'- -CUUCaGUCGCGGCCGU---------AGUCGc-UCUG- -5'
1357 3' -56.5 NC_001335.1 + 16665 0.69 0.415548
Target:  5'- cGAGUUcGCGCCGGCGUuggaCAGCGucaGGAa -3'
miRNA:   3'- cUUCAGuCGCGGCCGUA----GUCGC---UCUg -5'
1357 3' -56.5 NC_001335.1 + 8311 0.69 0.434746
Target:  5'- -cAGUCuGCGCUGuccucGCGUUcggGGCGAGACa -3'
miRNA:   3'- cuUCAGuCGCGGC-----CGUAG---UCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 20628 0.69 0.448487
Target:  5'- gGAGGUCAaucgcuccaccgaccGCGCCGaGCG-CGGCGAG-Cu -3'
miRNA:   3'- -CUUCAGU---------------CGCGGC-CGUaGUCGCUCuG- -5'
1357 3' -56.5 NC_001335.1 + 52092 0.68 0.48488
Target:  5'- --uGUCAGCGCgGGUAUgGGCGuGuauCg -3'
miRNA:   3'- cuuCAGUCGCGgCCGUAgUCGCuCu--G- -5'
1357 3' -56.5 NC_001335.1 + 3605 0.68 0.48488
Target:  5'- uGAAGuUCAGUGUCcacGCAgggaaCAGCGAGACc -3'
miRNA:   3'- -CUUC-AGUCGCGGc--CGUa----GUCGCUCUG- -5'
1357 3' -56.5 NC_001335.1 + 39607 0.68 0.495239
Target:  5'- -cAGUCGGCacCCGGCAcugCAuGCGAGAg -3'
miRNA:   3'- cuUCAGUCGc-GGCCGUa--GU-CGCUCUg -5'
1357 3' -56.5 NC_001335.1 + 34271 0.67 0.505698
Target:  5'- -cGGUguGCGCCGGU--CGGCGcGGAUg -3'
miRNA:   3'- cuUCAguCGCGGCCGuaGUCGC-UCUG- -5'
1357 3' -56.5 NC_001335.1 + 41488 0.67 0.505698
Target:  5'- -uGGUCuGCGCCGGCccCGGCaccGGGAa -3'
miRNA:   3'- cuUCAGuCGCGGCCGuaGUCG---CUCUg -5'
1357 3' -56.5 NC_001335.1 + 7875 0.67 0.505698
Target:  5'- --cGUCGGCuGCC-GUGUCAGCGAcGGCc -3'
miRNA:   3'- cuuCAGUCG-CGGcCGUAGUCGCU-CUG- -5'
1357 3' -56.5 NC_001335.1 + 37527 0.67 0.52689
Target:  5'- cGAGGaUCGGCuuGUgGGUGUCAGUGAcGACg -3'
miRNA:   3'- -CUUC-AGUCG--CGgCCGUAGUCGCU-CUG- -5'
1357 3' -56.5 NC_001335.1 + 12279 0.67 0.537611
Target:  5'- cGAGGUU-GUGCUGcCA-CAGCGAGACg -3'
miRNA:   3'- -CUUCAGuCGCGGCcGUaGUCGCUCUG- -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.