miRNA display CGI


Results 1 - 20 of 55 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
27564 3' -50.3 NC_005882.1 + 402 0.67 0.835413
Target:  5'- uGGCGAGcGgCGAUCUccUCGcGCCGgACCg -3'
miRNA:   3'- gCUGUUU-CgGCUAGA--AGU-CGGCaUGG- -5'
27564 3' -50.3 NC_005882.1 + 2943 0.72 0.558501
Target:  5'- aGGuCGGuGCCGGUCUUCAGguCCGUccACCa -3'
miRNA:   3'- gCU-GUUuCGGCUAGAAGUC--GGCA--UGG- -5'
27564 3' -50.3 NC_005882.1 + 3234 0.77 0.291386
Target:  5'- gGACGAcuucgcgagguacgGGCCGAUCUggaucgUCGGCCGgccGCCg -3'
miRNA:   3'- gCUGUU--------------UCGGCUAGA------AGUCGGCa--UGG- -5'
27564 3' -50.3 NC_005882.1 + 3319 0.73 0.513403
Target:  5'- aCGGCGGccGGCCGAcgaUCcagaUCGGCCcGUACCu -3'
miRNA:   3'- -GCUGUU--UCGGCU---AGa---AGUCGG-CAUGG- -5'
27564 3' -50.3 NC_005882.1 + 3730 0.66 0.894813
Target:  5'- gGACGAAuaccuCCGGUUcaagUUCGGCCGUcucgacaaGCCg -3'
miRNA:   3'- gCUGUUUc----GGCUAG----AAGUCGGCA--------UGG- -5'
27564 3' -50.3 NC_005882.1 + 3832 0.66 0.871
Target:  5'- aGcCGGAGCUGAaggUCAGCUGU-CCg -3'
miRNA:   3'- gCuGUUUCGGCUagaAGUCGGCAuGG- -5'
27564 3' -50.3 NC_005882.1 + 4451 0.67 0.806177
Target:  5'- aCGACGGGccacCCGGUCUccCAGCCGaacagcaaUACCg -3'
miRNA:   3'- -GCUGUUUc---GGCUAGAa-GUCGGC--------AUGG- -5'
27564 3' -50.3 NC_005882.1 + 4896 0.68 0.7644
Target:  5'- gCGGCAAAGCaGAUCaa-GGCCGcugucgaagcUGCCg -3'
miRNA:   3'- -GCUGUUUCGgCUAGaagUCGGC----------AUGG- -5'
27564 3' -50.3 NC_005882.1 + 4994 0.9 0.042107
Target:  5'- uCGACAAAGCCGAUCUUCcGaCGUACCu -3'
miRNA:   3'- -GCUGUUUCGGCUAGAAGuCgGCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 5036 0.71 0.627917
Target:  5'- aGGCAcuGCCGuUCggCGGCCGUcucgACCc -3'
miRNA:   3'- gCUGUuuCGGCuAGaaGUCGGCA----UGG- -5'
27564 3' -50.3 NC_005882.1 + 5774 0.71 0.616274
Target:  5'- gCGGCGGGGCCGAcCUgcugCAcGgUGUGCCa -3'
miRNA:   3'- -GCUGUUUCGGCUaGAa---GU-CgGCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 6762 0.68 0.753541
Target:  5'- aGGCGGAGUCGGUUauucgCGGCaaccugCGUGCCg -3'
miRNA:   3'- gCUGUUUCGGCUAGaa---GUCG------GCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 6918 0.67 0.806177
Target:  5'- gCGAUAucGUCGAgCUUCAGCUc-GCCg -3'
miRNA:   3'- -GCUGUuuCGGCUaGAAGUCGGcaUGG- -5'
27564 3' -50.3 NC_005882.1 + 7338 0.67 0.816143
Target:  5'- uCGACAguccGAGCCGucgCUacaCAGCUcggGUACCa -3'
miRNA:   3'- -GCUGU----UUCGGCua-GAa--GUCGG---CAUGG- -5'
27564 3' -50.3 NC_005882.1 + 8159 0.69 0.704302
Target:  5'- gCGuCGcGGCCGGUCgggaugucgaugaUCAGCCG-ACCg -3'
miRNA:   3'- -GCuGUuUCGGCUAGa------------AGUCGGCaUGG- -5'
27564 3' -50.3 NC_005882.1 + 8775 0.66 0.862497
Target:  5'- uGACGAAGCgaGGUCU-C-GCCGaugACCg -3'
miRNA:   3'- gCUGUUUCGg-CUAGAaGuCGGCa--UGG- -5'
27564 3' -50.3 NC_005882.1 + 11072 0.7 0.674414
Target:  5'- cCGGCGGuuccucGGCCucGAUCgUCAGCCGUucGCUg -3'
miRNA:   3'- -GCUGUU------UCGG--CUAGaAGUCGGCA--UGG- -5'
27564 3' -50.3 NC_005882.1 + 11242 0.67 0.844694
Target:  5'- cCGACAgcAAGCCGAauucuacggcuUCgaugagcgCAGCgCGUGCUc -3'
miRNA:   3'- -GCUGU--UUCGGCU-----------AGaa------GUCG-GCAUGG- -5'
27564 3' -50.3 NC_005882.1 + 11804 0.67 0.816143
Target:  5'- gGGCuacGAGCUGGUgUUC-GCCGcgGCCa -3'
miRNA:   3'- gCUGu--UUCGGCUAgAAGuCGGCa-UGG- -5'
27564 3' -50.3 NC_005882.1 + 12157 0.69 0.742545
Target:  5'- cCGGCcGAGCUGggCgaggcgCAGCCGUucaACCc -3'
miRNA:   3'- -GCUGuUUCGGCuaGaa----GUCGGCA---UGG- -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.