miRNA display CGI


Results 1 - 20 of 53 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
1598 3' -59.5 NC_001347.2 + 2095 0.7 0.677485
Target:  5'- gCCGUacgGCGCCG-CCggCG-GGGGCGCg -3'
miRNA:   3'- -GGCAg--UGCGGCaGGagGCuCUCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 8608 0.69 0.751535
Target:  5'- cCCGUCACGCaggcgcuggCGUUC-CCGuAGcGGGUGCg -3'
miRNA:   3'- -GGCAGUGCG---------GCAGGaGGC-UC-UCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 13703 0.66 0.885111
Target:  5'- aCCGUCAUcgGCaCGUgCucuuuuuugaaaUCCGAGAGGUaGCc -3'
miRNA:   3'- -GGCAGUG--CG-GCAgG------------AGGCUCUCCG-CG- -5'
1598 3' -59.5 NC_001347.2 + 21081 0.67 0.843083
Target:  5'- uCCGUCACGCCGUCuguCUCUaccuGGacaGCa -3'
miRNA:   3'- -GGCAGUGCGGCAG---GAGGcucuCCg--CG- -5'
1598 3' -59.5 NC_001347.2 + 24499 0.68 0.811673
Target:  5'- uUGUCACGuuGUCUgggcgCCc-GAGGUGCu -3'
miRNA:   3'- gGCAGUGCggCAGGa----GGcuCUCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 29075 0.66 0.893943
Target:  5'- gCCGUUAcCGCCucuGUCCgauguuucggaguaCCGAguagaguauuccGAGGCGCg -3'
miRNA:   3'- -GGCAGU-GCGG---CAGGa-------------GGCU------------CUCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 38009 0.67 0.864915
Target:  5'- gCCGcCGCGCgG-CCUCggCGGcGGGCGCc -3'
miRNA:   3'- -GGCaGUGCGgCaGGAG--GCUcUCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 38674 0.67 0.864915
Target:  5'- aCCGUCGUGCCGgCCcaCCGcc-GGCGCa -3'
miRNA:   3'- -GGCAGUGCGGCaGGa-GGCucuCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 38705 0.73 0.544849
Target:  5'- cCCGUCcgaGCGCCGUcgCCUCCuc--GGCGCg -3'
miRNA:   3'- -GGCAG---UGCGGCA--GGAGGcucuCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 39795 0.66 0.891459
Target:  5'- gCG-CACaGCCG-CCUCCc--GGGCGCg -3'
miRNA:   3'- gGCaGUG-CGGCaGGAGGcucUCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 42333 0.69 0.74252
Target:  5'- -aGUCACGCguaCG-CCUCUGGuGuGGCGCg -3'
miRNA:   3'- ggCAGUGCG---GCaGGAGGCU-CuCCGCG- -5'
1598 3' -59.5 NC_001347.2 + 66667 0.66 0.878568
Target:  5'- uCCGUCGCGa---UCUCCGAGAGGa-- -3'
miRNA:   3'- -GGCAGUGCggcaGGAGGCUCUCCgcg -5'
1598 3' -59.5 NC_001347.2 + 67932 0.66 0.885111
Target:  5'- gCCGggacUCAcCGUCGUUCUCggaggaGGGAGGCGg -3'
miRNA:   3'- -GGC----AGU-GCGGCAGGAGg-----CUCUCCGCg -5'
1598 3' -59.5 NC_001347.2 + 69525 0.67 0.835465
Target:  5'- gUCGUCGuCGCCGgcuucgCCUCCucGGAaGCGCc -3'
miRNA:   3'- -GGCAGU-GCGGCa-----GGAGGc-UCUcCGCG- -5'
1598 3' -59.5 NC_001347.2 + 81480 0.66 0.878568
Target:  5'- -aGUgGCGUCGUCgCUCgGcGGGuGCGCa -3'
miRNA:   3'- ggCAgUGCGGCAG-GAGgCuCUC-CGCG- -5'
1598 3' -59.5 NC_001347.2 + 83873 0.66 0.891459
Target:  5'- gUGUCGCGCCGUCCgcuacuUUCGcGGAcGCGg -3'
miRNA:   3'- gGCAGUGCGGCAGG------AGGC-UCUcCGCg -5'
1598 3' -59.5 NC_001347.2 + 88222 0.73 0.545778
Target:  5'- gCCGcUCACGCUGUCCgaggggucgcugccgCCGgugaAGAGaGCGCg -3'
miRNA:   3'- -GGC-AGUGCGGCAGGa--------------GGC----UCUC-CGCG- -5'
1598 3' -59.5 NC_001347.2 + 89296 0.66 0.903558
Target:  5'- aCGUgaugagaccCGCGUCGUUCagCGAGAGaGCGUc -3'
miRNA:   3'- gGCA---------GUGCGGCAGGagGCUCUC-CGCG- -5'
1598 3' -59.5 NC_001347.2 + 91165 0.69 0.760459
Target:  5'- aCGUUuCGcCCGUgCUCCGAGGagcaGCGCg -3'
miRNA:   3'- gGCAGuGC-GGCAgGAGGCUCUc---CGCG- -5'
1598 3' -59.5 NC_001347.2 + 92253 0.71 0.639449
Target:  5'- cCCG-CAgGCCGUggCCgCCGccauGAGGCGCg -3'
miRNA:   3'- -GGCaGUgCGGCA--GGaGGCu---CUCCGCG- -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.