miRNA display CGI


Results 1 - 20 of 25 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
11957 3' -60.8 NC_003278.1 + 17306 0.66 0.33818
Target:  5'- -cAUCGGCGcugaCGCCGCCGaugACCg- -3'
miRNA:   3'- ucUAGCCGCca--GCGGCGGCga-UGGac -5'
11957 3' -60.8 NC_003278.1 + 16795 0.66 0.33818
Target:  5'- cAGuuggCGGCGGUaCGCCuGCaGC-GCCUGg -3'
miRNA:   3'- -UCua--GCCGCCA-GCGG-CGgCGaUGGAC- -5'
11957 3' -60.8 NC_003278.1 + 22904 0.66 0.322207
Target:  5'- aGGAcuUCGauGCGGUgGCCaccgugaaaGCCGgCUGCCUGc -3'
miRNA:   3'- -UCU--AGC--CGCCAgCGG---------CGGC-GAUGGAC- -5'
11957 3' -60.8 NC_003278.1 + 33192 0.66 0.299316
Target:  5'- cGGAUCGGCaaugcGGUucCGCCGgCUGCgGCCg- -3'
miRNA:   3'- -UCUAGCCG-----CCA--GCGGC-GGCGaUGGac -5'
11957 3' -60.8 NC_003278.1 + 21417 0.67 0.291971
Target:  5'- cGAUC-GCGG-CGCCGCCGacGCgCUGg -3'
miRNA:   3'- uCUAGcCGCCaGCGGCGGCgaUG-GAC- -5'
11957 3' -60.8 NC_003278.1 + 31690 0.67 0.291971
Target:  5'- cGGUUGaagccuGCGG-CGCCGCCGCccagGCCg- -3'
miRNA:   3'- uCUAGC------CGCCaGCGGCGGCGa---UGGac -5'
11957 3' -60.8 NC_003278.1 + 9078 0.67 0.284767
Target:  5'- --cUCGGCGGU-GCCGCCgGCauaGCCg- -3'
miRNA:   3'- ucuAGCCGCCAgCGGCGG-CGa--UGGac -5'
11957 3' -60.8 NC_003278.1 + 2551 0.67 0.284767
Target:  5'- cAGAUCGGCGuggccgguGUUGUCGuuGCgGCCg- -3'
miRNA:   3'- -UCUAGCCGC--------CAGCGGCggCGaUGGac -5'
11957 3' -60.8 NC_003278.1 + 5737 0.67 0.277705
Target:  5'- cGGUUGGUGGUaGCCGCgGCgcuggUGCCg- -3'
miRNA:   3'- uCUAGCCGCCAgCGGCGgCG-----AUGGac -5'
11957 3' -60.8 NC_003278.1 + 31629 0.67 0.277705
Target:  5'- uGggCGGCGG-CGCCGCagGCUucaACCg- -3'
miRNA:   3'- uCuaGCCGCCaGCGGCGg-CGA---UGGac -5'
11957 3' -60.8 NC_003278.1 + 6173 0.68 0.232141
Target:  5'- cAGGUagCGGCGG-CGaCCGCCGauCUGCCa- -3'
miRNA:   3'- -UCUA--GCCGCCaGC-GGCGGC--GAUGGac -5'
11957 3' -60.8 NC_003278.1 + 29887 0.68 0.226171
Target:  5'- aGGAcUUGGCGG-CGCCGCCgGCgcgGCUg- -3'
miRNA:   3'- -UCU-AGCCGCCaGCGGCGG-CGa--UGGac -5'
11957 3' -60.8 NC_003278.1 + 21064 0.69 0.214622
Target:  5'- ---gUGGCGGUgcuggcCGgCGCCGCgUACCUGa -3'
miRNA:   3'- ucuaGCCGCCA------GCgGCGGCG-AUGGAC- -5'
11957 3' -60.8 NC_003278.1 + 13266 0.69 0.209039
Target:  5'- cAGGUCcGcCGGggCGCUGCCGUUGcCCUGg -3'
miRNA:   3'- -UCUAGcC-GCCa-GCGGCGGCGAU-GGAC- -5'
11957 3' -60.8 NC_003278.1 + 12787 0.69 0.203583
Target:  5'- aGGAUCagcaGGCGGaaaUCGCCGCCcGCcucgcCCUGg -3'
miRNA:   3'- -UCUAG----CCGCC---AGCGGCGG-CGau---GGAC- -5'
11957 3' -60.8 NC_003278.1 + 8766 0.69 0.19825
Target:  5'- --cUCGGCGG-CGCUGaCUGCUcgcACCUGc -3'
miRNA:   3'- ucuAGCCGCCaGCGGC-GGCGA---UGGAC- -5'
11957 3' -60.8 NC_003278.1 + 15922 0.7 0.178121
Target:  5'- ---cCGGCGGUcuguacuggCGCUGCCGCUACa-- -3'
miRNA:   3'- ucuaGCCGCCA---------GCGGCGGCGAUGgac -5'
11957 3' -60.8 NC_003278.1 + 5661 0.71 0.151332
Target:  5'- uGAUCGGCuucaacGGcaccagCGCCGCgGCUACCa- -3'
miRNA:   3'- uCUAGCCG------CCa-----GCGGCGgCGAUGGac -5'
11957 3' -60.8 NC_003278.1 + 26604 0.71 0.135561
Target:  5'- ---cUGGCGGacgcgaaugCGCCGCCGCccGCCUGg -3'
miRNA:   3'- ucuaGCCGCCa--------GCGGCGGCGa-UGGAC- -5'
11957 3' -60.8 NC_003278.1 + 5871 0.72 0.128254
Target:  5'- -aGUCGGC-GUCGgCGCCGUUGCCg- -3'
miRNA:   3'- ucUAGCCGcCAGCgGCGGCGAUGGac -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.