miRNA display CGI


Results 1 - 20 of 54 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
16414 3' -58.4 NC_004084.1 + 12918 0.66 0.606833
Target:  5'- cCGaCCggcCCGGCCaGGuAGACG-CUGAUCg -3'
miRNA:   3'- aGC-GGa--GGCCGG-CU-UCUGCuGGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 30248 0.66 0.606833
Target:  5'- aCGUCgaacaGGCCGAGGACGgacuauuccaGCCGAa- -3'
miRNA:   3'- aGCGGagg--CCGGCUUCUGC----------UGGCUag -5'
16414 3' -58.4 NC_004084.1 + 49657 0.66 0.606833
Target:  5'- gUCGgCguaCCGGCUGAAGcCGGgUGGUCc -3'
miRNA:   3'- -AGCgGa--GGCCGGCUUCuGCUgGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 2781 0.66 0.597277
Target:  5'- gCGCCgaugggugagacggaCCcGCCGAAGAUcugGAUCGAUCa -3'
miRNA:   3'- aGCGGa--------------GGcCGGCUUCUG---CUGGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 57038 0.66 0.596217
Target:  5'- aUGUCgUCCGGCCGcuuucGCGucCCGAUCa -3'
miRNA:   3'- aGCGG-AGGCCGGCuuc--UGCu-GGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 39034 0.66 0.596217
Target:  5'- aUCGCCUgCCcaGGUCGAugcgaucgGGACGuugUCGAUCa -3'
miRNA:   3'- -AGCGGA-GG--CCGGCU--------UCUGCu--GGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 49514 0.66 0.595156
Target:  5'- cUCGa-UCCGGUCGGcauccacGGACGAUCGAg- -3'
miRNA:   3'- -AGCggAGGCCGGCU-------UCUGCUGGCUag -5'
16414 3' -58.4 NC_004084.1 + 979 0.66 0.585629
Target:  5'- gUGCCaccgggaCGGCCuGAGACGAC-GAUCa -3'
miRNA:   3'- aGCGGag-----GCCGGcUUCUGCUGgCUAG- -5'
16414 3' -58.4 NC_004084.1 + 5111 0.66 0.579294
Target:  5'- cCGCCagCUGGCCGAccgucGauacaaccucggcguGGCGACCGAcgUCg -3'
miRNA:   3'- aGCGGa-GGCCGGCU-----U---------------CUGCUGGCU--AG- -5'
16414 3' -58.4 NC_004084.1 + 51645 0.66 0.575078
Target:  5'- aCGUCUUCGGCguuccgcaGGAGGCGA-UGAUCg -3'
miRNA:   3'- aGCGGAGGCCGg-------CUUCUGCUgGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 41086 0.66 0.575078
Target:  5'- cUCGCCUCCGGC-GuuGAUcuccUCGAUCg -3'
miRNA:   3'- -AGCGGAGGCCGgCuuCUGcu--GGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 1874 0.66 0.571921
Target:  5'- gUCGCCUCCuGGacugccacgccaagUCGggGAuggggcCGACCGAcaUCa -3'
miRNA:   3'- -AGCGGAGG-CC--------------GGCuuCU------GCUGGCU--AG- -5'
16414 3' -58.4 NC_004084.1 + 51382 0.66 0.564571
Target:  5'- -gGCCUCCcuacGGCaacgaGAuGGCGGCCGAc- -3'
miRNA:   3'- agCGGAGG----CCGg----CUuCUGCUGGCUag -5'
16414 3' -58.4 NC_004084.1 + 574 0.66 0.554115
Target:  5'- aUCuUC-CCGGCCGAGgaacucgagauGACGGCCGAcgUCa -3'
miRNA:   3'- -AGcGGaGGCCGGCUU-----------CUGCUGGCU--AG- -5'
16414 3' -58.4 NC_004084.1 + 55421 0.66 0.553072
Target:  5'- aUCGCCgggggggUCUGGCUc-AGugGugCGAUCu -3'
miRNA:   3'- -AGCGG-------AGGCCGGcuUCugCugGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 12991 0.67 0.543717
Target:  5'- gUCGCaccgacaUCCGGCuCGAucGACGACCu--- -3'
miRNA:   3'- -AGCGg------AGGCCG-GCUu-CUGCUGGcuag -5'
16414 3' -58.4 NC_004084.1 + 9866 0.67 0.543717
Target:  5'- aCGCgggagcCCGGCgGAAGagucgGCGACCGAUg -3'
miRNA:   3'- aGCGga----GGCCGgCUUC-----UGCUGGCUAg -5'
16414 3' -58.4 NC_004084.1 + 35305 0.67 0.54061
Target:  5'- aUCGUuucgacggucaccuUUCCGGCCuu-GACGACCGGc- -3'
miRNA:   3'- -AGCG--------------GAGGCCGGcuuCUGCUGGCUag -5'
16414 3' -58.4 NC_004084.1 + 35589 0.67 0.533383
Target:  5'- uUCGCCUCggCGGCuCGAAcg-GAUCGAUCc -3'
miRNA:   3'- -AGCGGAG--GCCG-GCUUcugCUGGCUAG- -5'
16414 3' -58.4 NC_004084.1 + 56861 0.67 0.533383
Target:  5'- uUCGCgggCUCCGGCUc--GACGGCCGugccUCg -3'
miRNA:   3'- -AGCG---GAGGCCGGcuuCUGCUGGCu---AG- -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.