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
12194 3' -54.7 NC_003309.1 + 1256 0.68 0.656315
Target:  5'- cGUACaGCGCGGCG---CUGUCGUGCUc -3'
miRNA:   3'- -CGUGcCGCGUUGCuugGACAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 1343 0.67 0.710591
Target:  5'- aGCACGGCcCcuCGAugU--UCGCGCCc -3'
miRNA:   3'- -CGUGCCGcGuuGCUugGacAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 1779 0.75 0.276518
Target:  5'- cCGCGGCGCAACGcagaaguaauGCCgccgcccgucgaUGUCGUGCCa -3'
miRNA:   3'- cGUGCCGCGUUGCu---------UGG------------ACAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 3957 0.69 0.579649
Target:  5'- gGCAcguCGGCGCuccgauGCGGcagccAUCUG-CGCGCCg -3'
miRNA:   3'- -CGU---GCCGCGu-----UGCU-----UGGACaGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 4179 0.68 0.653027
Target:  5'- aGCGCGGaUGUcguccgccagcucgAACGcGCCgGUCGCGCUc -3'
miRNA:   3'- -CGUGCC-GCG--------------UUGCuUGGaCAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 4689 0.65 0.782041
Target:  5'- uCGCGGcCGC-GCGAGCCgaaacGcuacggcgcgcauUCGCGCCu -3'
miRNA:   3'- cGUGCC-GCGuUGCUUGGa----C-------------AGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 5068 0.68 0.667257
Target:  5'- uGCACgGGCGCGGCG-GCCg---GUGCCg -3'
miRNA:   3'- -CGUG-CCGCGUUGCuUGGacagCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 5133 0.69 0.60147
Target:  5'- cCGCGaGCGC-ACGuACCaUG-CGCGCCa -3'
miRNA:   3'- cGUGC-CGCGuUGCuUGG-ACaGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 6285 0.69 0.60147
Target:  5'- gGCAauauCGGCGuCGACGAGuuUGUcCGCAUg -3'
miRNA:   3'- -CGU----GCCGC-GUUGCUUggACA-GCGUGg -5'
12194 3' -54.7 NC_003309.1 + 7749 0.72 0.415855
Target:  5'- cGC-CGGUGCGACGccgagauACCccuUCGCACCa -3'
miRNA:   3'- -CGuGCCGCGUUGCu------UGGac-AGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 8531 0.71 0.444542
Target:  5'- -gGCGGCGgcACGAGCUUcggCGCACCg -3'
miRNA:   3'- cgUGCCGCguUGCUUGGAca-GCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 8930 0.74 0.312471
Target:  5'- uGCACGGgGCcgAACGccuccgcGACCgcgGUCGCAUCg -3'
miRNA:   3'- -CGUGCCgCG--UUGC-------UUGGa--CAGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 9100 0.67 0.678167
Target:  5'- aGCuCGGCG-GACGAcAUCUGcUCGCGCa -3'
miRNA:   3'- -CGuGCCGCgUUGCU-UGGAC-AGCGUGg -5'
12194 3' -54.7 NC_003309.1 + 9528 0.68 0.612424
Target:  5'- uGCGCGcCGCGuCGAGCgCg--CGCACCg -3'
miRNA:   3'- -CGUGCcGCGUuGCUUG-GacaGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 10476 0.68 0.623395
Target:  5'- cGCAuCGcGCGCAugccGCGAguucgGCCUG-CGCuGCCg -3'
miRNA:   3'- -CGU-GC-CGCGU----UGCU-----UGGACaGCG-UGG- -5'
12194 3' -54.7 NC_003309.1 + 10649 0.68 0.612424
Target:  5'- cGUACGGCauGCccGCGAugCg--CGCGCCg -3'
miRNA:   3'- -CGUGCCG--CGu-UGCUugGacaGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 10725 0.72 0.425292
Target:  5'- uGCGCGaGCGCgAGCGaAGCCUcggCGCGCUc -3'
miRNA:   3'- -CGUGC-CGCG-UUGC-UUGGAca-GCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 11300 0.66 0.77306
Target:  5'- cGgACGGCGCAuc--GCCaaacGUCGgCACCa -3'
miRNA:   3'- -CgUGCCGCGUugcuUGGa---CAGC-GUGG- -5'
12194 3' -54.7 NC_003309.1 + 11759 0.67 0.700922
Target:  5'- cGCcCGGCGaucagccccgccauGCGGACCUGcgcgucguUCGCGCUc -3'
miRNA:   3'- -CGuGCCGCgu------------UGCUUGGAC--------AGCGUGG- -5'
12194 3' -54.7 NC_003309.1 + 11990 0.68 0.667257
Target:  5'- uGCcCGcGCGCGGC-AGCCgcgGcgCGCGCCg -3'
miRNA:   3'- -CGuGC-CGCGUUGcUUGGa--Ca-GCGUGG- -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.