miRNA display CGI


Results 1 - 18 of 18 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
24964 3' -56.7 NC_005284.1 + 41014 0.66 0.683662
Target:  5'- cGGCGAuCGucGCGGA--GGACGUUCa-- -3'
miRNA:   3'- -CCGCU-GCu-CGCCUguCCUGCAAGgac -5'
24964 3' -56.7 NC_005284.1 + 30253 0.66 0.672961
Target:  5'- cGGcCGuCGAGCGGGCGcGuuCGUUCgCUGu -3'
miRNA:   3'- -CC-GCuGCUCGCCUGU-CcuGCAAG-GAC- -5'
24964 3' -56.7 NC_005284.1 + 21429 0.66 0.651459
Target:  5'- cGGcCGACGAaCGGGCGGuGuCGUUCgaGg -3'
miRNA:   3'- -CC-GCUGCUcGCCUGUC-CuGCAAGgaC- -5'
24964 3' -56.7 NC_005284.1 + 26311 0.66 0.640677
Target:  5'- cGGCGcguGCGAGCGGAaagcauGGACaUUCUUc -3'
miRNA:   3'- -CCGC---UGCUCGCCUgu----CCUGcAAGGAc -5'
24964 3' -56.7 NC_005284.1 + 11700 0.66 0.640677
Target:  5'- aGCGACGAGUuucgccgucGACGGGACGaa-CUGa -3'
miRNA:   3'- cCGCUGCUCGc--------CUGUCCUGCaagGAC- -5'
24964 3' -56.7 NC_005284.1 + 10634 0.67 0.629888
Target:  5'- cGGCGACGAGCGG-CGGcGAag--CgCUGc -3'
miRNA:   3'- -CCGCUGCUCGCCuGUC-CUgcaaG-GAC- -5'
24964 3' -56.7 NC_005284.1 + 45167 0.67 0.6191
Target:  5'- cGGCGACGu-CGGGCAGGA-GaUCgUGa -3'
miRNA:   3'- -CCGCUGCucGCCUGUCCUgCaAGgAC- -5'
24964 3' -56.7 NC_005284.1 + 10226 0.67 0.6191
Target:  5'- uGGCGACc-GUGGGCAcGGugGcgCUUGg -3'
miRNA:   3'- -CCGCUGcuCGCCUGU-CCugCaaGGAC- -5'
24964 3' -56.7 NC_005284.1 + 48978 0.67 0.576147
Target:  5'- cGGUGcuGCGcGGCuGGACGGGGCuGUUCCc- -3'
miRNA:   3'- -CCGC--UGC-UCG-CCUGUCCUG-CAAGGac -5'
24964 3' -56.7 NC_005284.1 + 20364 0.68 0.544367
Target:  5'- gGGCGAUGAGUGGGucaUGGGAUGg-CUUGa -3'
miRNA:   3'- -CCGCUGCUCGCCU---GUCCUGCaaGGAC- -5'
24964 3' -56.7 NC_005284.1 + 12196 0.68 0.532853
Target:  5'- cGCGACGGGCGGGgcgguguggggacCGGGcACG-UCCa- -3'
miRNA:   3'- cCGCUGCUCGCCU-------------GUCC-UGCaAGGac -5'
24964 3' -56.7 NC_005284.1 + 26929 0.69 0.482746
Target:  5'- cGGCGAUGcGcCGGGCGGG-CGUcgUCUGg -3'
miRNA:   3'- -CCGCUGCuC-GCCUGUCCuGCAa-GGAC- -5'
24964 3' -56.7 NC_005284.1 + 58 0.69 0.46295
Target:  5'- cGGCGcauccgcCGGGCGGGCAacgacGGACGggCCa- -3'
miRNA:   3'- -CCGCu------GCUCGCCUGU-----CCUGCaaGGac -5'
24964 3' -56.7 NC_005284.1 + 54687 0.7 0.424689
Target:  5'- cGGCGcGCGAGCGGuuGCGGuGACGUggugguggcccgUCCg- -3'
miRNA:   3'- -CCGC-UGCUCGCC--UGUC-CUGCA------------AGGac -5'
24964 3' -56.7 NC_005284.1 + 8370 0.7 0.415422
Target:  5'- cGGCGAUGAucGCGG-CGGcGGCGUUUCa- -3'
miRNA:   3'- -CCGCUGCU--CGCCuGUC-CUGCAAGGac -5'
24964 3' -56.7 NC_005284.1 + 12675 0.73 0.285221
Target:  5'- cGGCGACGgcuacacccAGCGGGCcgcGGACGg-CCUGa -3'
miRNA:   3'- -CCGCUGC---------UCGCCUGu--CCUGCaaGGAC- -5'
24964 3' -56.7 NC_005284.1 + 20839 0.73 0.271415
Target:  5'- cGGcCGACGAGCGGGCGGcGC-UUCCg- -3'
miRNA:   3'- -CC-GCUGCUCGCCUGUCcUGcAAGGac -5'
24964 3' -56.7 NC_005284.1 + 49026 1.1 0.000752
Target:  5'- cGGCGACGAGCGGACAGGACGUUCCUGc -3'
miRNA:   3'- -CCGCUGCUCGCCUGUCCUGCAAGGAC- -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.