miRNA display CGI


Results 1 - 20 of 69 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
16323 3' -59.7 NC_004084.1 + 1753 0.66 0.529844
Target:  5'- cCGCCGCCGAaGUaCCgagCGGggcCugGCGa -3'
miRNA:   3'- -GCGGCGGCUcCA-GGa--GCUa--GugCGCg -5'
16323 3' -59.7 NC_004084.1 + 28335 0.67 0.457146
Target:  5'- uCGCCGCCGuccuucuucucgcGGacgaguagcgguUCCUCGGUCagcguuucgACGUGCa -3'
miRNA:   3'- -GCGGCGGCu------------CC------------AGGAGCUAG---------UGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 26720 0.67 0.460943
Target:  5'- aGCCGCUGAGGcCCgcUCGGccCACaGCGa -3'
miRNA:   3'- gCGGCGGCUCCaGG--AGCUa-GUG-CGCg -5'
16323 3' -59.7 NC_004084.1 + 56936 0.67 0.480173
Target:  5'- aCGUCuaCcagGAGGUCgUCGAUCGC-CGCa -3'
miRNA:   3'- -GCGGcgG---CUCCAGgAGCUAGUGcGCG- -5'
16323 3' -59.7 NC_004084.1 + 29427 0.67 0.489934
Target:  5'- uCGCgGUCaucAGG-CCgacgUCGGUCGCGCGCu -3'
miRNA:   3'- -GCGgCGGc--UCCaGG----AGCUAGUGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 39617 0.67 0.489934
Target:  5'- gGCCGgCGAcGUCCUCGAcgagucgaucgUACGCGa -3'
miRNA:   3'- gCGGCgGCUcCAGGAGCUa----------GUGCGCg -5'
16323 3' -59.7 NC_004084.1 + 30027 0.67 0.498797
Target:  5'- gCGCCGaUCGAGGUCUcgCGGgggccgcUCGCGuCGUu -3'
miRNA:   3'- -GCGGC-GGCUCCAGGa-GCU-------AGUGC-GCG- -5'
16323 3' -59.7 NC_004084.1 + 48970 0.67 0.499786
Target:  5'- uGCCGCCGAcuacgGcGUCCcgcagcacCGAgagCGCGUGCu -3'
miRNA:   3'- gCGGCGGCU-----C-CAGGa-------GCUa--GUGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 28091 0.66 0.519746
Target:  5'- uCGCCGacggucaacgguUCGGGGUgcgCCUCGAcgaGCGCGUc -3'
miRNA:   3'- -GCGGC------------GGCUCCA---GGAGCUag-UGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 35710 0.67 0.451482
Target:  5'- aGCCGCacuCGAGGUUCUCa---GgGCGCg -3'
miRNA:   3'- gCGGCG---GCUCCAGGAGcuagUgCGCG- -5'
16323 3' -59.7 NC_004084.1 + 42364 0.68 0.423755
Target:  5'- gCGCCagGCCGAGcGggagcaacgcaUCCUCGAggaggCcCGCGCa -3'
miRNA:   3'- -GCGG--CGGCUC-C-----------AGGAGCUa----GuGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 24998 0.68 0.397073
Target:  5'- aCGCgaUGuuGAGGcCCUCGuaCGCGUGCg -3'
miRNA:   3'- -GCG--GCggCUCCaGGAGCuaGUGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 29565 0.73 0.200321
Target:  5'- gGCCGuuGAGGgCCaucgccgggugggcgUCGuUCGCGCGCa -3'
miRNA:   3'- gCGGCggCUCCaGG---------------AGCuAGUGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 35099 0.7 0.301727
Target:  5'- uGaCCGCUucuGGUacgcgcUCUCGGUCACGCGCu -3'
miRNA:   3'- gC-GGCGGcu-CCA------GGAGCUAGUGCGCG- -5'
16323 3' -59.7 NC_004084.1 + 27657 0.69 0.34627
Target:  5'- uGCCGCCGGGGauccgguUCCUCG-UCAUcuUGCu -3'
miRNA:   3'- gCGGCGGCUCC-------AGGAGCuAGUGc-GCG- -5'
16323 3' -59.7 NC_004084.1 + 39258 0.69 0.347065
Target:  5'- gGCgGCgGGaagaugguGGUCgUCGAUCGCGuCGCg -3'
miRNA:   3'- gCGgCGgCU--------CCAGgAGCUAGUGC-GCG- -5'
16323 3' -59.7 NC_004084.1 + 44531 0.69 0.363223
Target:  5'- aGCUGCagggGaAGGUCCUCGGcugCugGUGCc -3'
miRNA:   3'- gCGGCGg---C-UCCAGGAGCUa--GugCGCG- -5'
16323 3' -59.7 NC_004084.1 + 35336 0.69 0.379896
Target:  5'- gGUCGCCGAcGUCCaccUCG-UCGCGuCGCc -3'
miRNA:   3'- gCGGCGGCUcCAGG---AGCuAGUGC-GCG- -5'
16323 3' -59.7 NC_004084.1 + 36949 0.69 0.388422
Target:  5'- uCGCCGCCcucGAGGgcgagccgguUCCUCG-UCACGUcCg -3'
miRNA:   3'- -GCGGCGG---CUCC----------AGGAGCuAGUGCGcG- -5'
16323 3' -59.7 NC_004084.1 + 20846 0.69 0.388422
Target:  5'- uCGCuCGCCGAGGguggcaCgUCGAcCGCGCcgGCg -3'
miRNA:   3'- -GCG-GCGGCUCCa-----GgAGCUaGUGCG--CG- -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.