miRNA display CGI


Results 1 - 20 of 21 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
7267 3' -57.6 NC_001900.1 + 1171 0.66 0.585047
Target:  5'- -gUCCUCGggUUccaGGGGcaccgccgcuACCGGCGGa- -3'
miRNA:   3'- caAGGAGCuuGA---CCUC----------UGGCCGCCgc -5'
7267 3' -57.6 NC_001900.1 + 40287 0.66 0.585047
Target:  5'- -gUCCUCGAcCguguGGCCGGuCGGCa -3'
miRNA:   3'- caAGGAGCUuGaccuCUGGCC-GCCGc -5'
7267 3' -57.6 NC_001900.1 + 24912 0.66 0.585047
Target:  5'- uUUCCUCGAAUUGccuccAGcaccACCGGCaGCGa -3'
miRNA:   3'- cAAGGAGCUUGACc----UC----UGGCCGcCGC- -5'
7267 3' -57.6 NC_001900.1 + 10233 0.66 0.573196
Target:  5'- --gCCUC-AGC-GGAGGCCGgaugucaGCGGCGg -3'
miRNA:   3'- caaGGAGcUUGaCCUCUGGC-------CGCCGC- -5'
7267 3' -57.6 NC_001900.1 + 25557 0.66 0.552866
Target:  5'- --aCCUcCGGGCcgugGGAGccacGCUGGCGGCu -3'
miRNA:   3'- caaGGA-GCUUGa---CCUC----UGGCCGCCGc -5'
7267 3' -57.6 NC_001900.1 + 35259 0.66 0.542251
Target:  5'- --gCCUCa---UGGAGGgCGGUGGCGu -3'
miRNA:   3'- caaGGAGcuugACCUCUgGCCGCCGC- -5'
7267 3' -57.6 NC_001900.1 + 38160 0.67 0.500543
Target:  5'- -gUCCagGAACUGcuGGAuCCGGUGGCa -3'
miRNA:   3'- caAGGagCUUGACc-UCU-GGCCGCCGc -5'
7267 3' -57.6 NC_001900.1 + 1448 0.67 0.490333
Target:  5'- -aUCCgacggUGAguGCUGGucGCgGGCGGCGa -3'
miRNA:   3'- caAGGa----GCU--UGACCucUGgCCGCCGC- -5'
7267 3' -57.6 NC_001900.1 + 15099 0.67 0.480221
Target:  5'- --aCCU-GGACUGGAGccACCGGCuGGuCGa -3'
miRNA:   3'- caaGGAgCUUGACCUC--UGGCCG-CC-GC- -5'
7267 3' -57.6 NC_001900.1 + 24757 0.67 0.480221
Target:  5'- -aUCUUCGGAC---AGACCGGCgcgGGCGg -3'
miRNA:   3'- caAGGAGCUUGaccUCUGGCCG---CCGC- -5'
7267 3' -57.6 NC_001900.1 + 11905 0.68 0.470212
Target:  5'- --aCCUCGAACU---GAUCGGCGGUu -3'
miRNA:   3'- caaGGAGCUUGAccuCUGGCCGCCGc -5'
7267 3' -57.6 NC_001900.1 + 45207 0.68 0.470212
Target:  5'- --cCCUCGAACUGGccuacaAGGCUaguGaGCGGCa -3'
miRNA:   3'- caaGGAGCUUGACC------UCUGG---C-CGCCGc -5'
7267 3' -57.6 NC_001900.1 + 22566 0.68 0.431291
Target:  5'- ---aCUCGAagcgaucggaGCUGacggcgcauucGAGAUCGGCGGCGg -3'
miRNA:   3'- caagGAGCU----------UGAC-----------CUCUGGCCGCCGC- -5'
7267 3' -57.6 NC_001900.1 + 4435 0.68 0.421858
Target:  5'- ----gUCGAAcCUGGA-ACCGGCGGCu -3'
miRNA:   3'- caaggAGCUU-GACCUcUGGCCGCCGc -5'
7267 3' -57.6 NC_001900.1 + 23170 0.69 0.412551
Target:  5'- gGUUCCaCGucuGCUGGAGcCCGGaGGCu -3'
miRNA:   3'- -CAAGGaGCu--UGACCUCuGGCCgCCGc -5'
7267 3' -57.6 NC_001900.1 + 39130 0.69 0.412551
Target:  5'- -cUCCcCGAugacCUGGAcGGCCGGgGGCu -3'
miRNA:   3'- caAGGaGCUu---GACCU-CUGGCCgCCGc -5'
7267 3' -57.6 NC_001900.1 + 35925 0.69 0.376622
Target:  5'- -cUCCagGAACUccGGGAUCGGCGGCu -3'
miRNA:   3'- caAGGagCUUGAc-CUCUGGCCGCCGc -5'
7267 3' -57.6 NC_001900.1 + 8553 0.7 0.350266
Target:  5'- uGggCUUCGAGCUGGcuccgcuGGACCGG-GGCc -3'
miRNA:   3'- -CaaGGAGCUUGACC-------UCUGGCCgCCGc -5'
7267 3' -57.6 NC_001900.1 + 9622 0.7 0.334772
Target:  5'- -aUCCUCGGAUcGGucGGCCGGCcaaGGCa -3'
miRNA:   3'- caAGGAGCUUGaCCu-CUGGCCG---CCGc -5'
7267 3' -57.6 NC_001900.1 + 31997 0.7 0.333971
Target:  5'- -gUCCUCGAcuucuACUacaugaccgccgaGGAGACCGaGCGGUu -3'
miRNA:   3'- caAGGAGCU-----UGA-------------CCUCUGGC-CGCCGc -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.