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
1515 5' -58.8 NC_001335.1 + 33881 0.66 0.535275
Target:  5'- gCCGGCCggcaaGA-CCGAcuaCCUCGACCUg -3'
miRNA:   3'- -GGUCGGac---CUaGGCUc--GGAGCUGGAg -5'
1515 5' -58.8 NC_001335.1 + 2016 0.66 0.524889
Target:  5'- gCAGCCg----CCGAGCC-CGAUCUUc -3'
miRNA:   3'- gGUCGGaccuaGGCUCGGaGCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 20501 0.66 0.504356
Target:  5'- aCCAGCCaGGAagCUGGuGUCggUGGCCUCg -3'
miRNA:   3'- -GGUCGGaCCUa-GGCU-CGGa-GCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 49167 0.66 0.504356
Target:  5'- cUCAGUagucgcugugCUGGGUCuCGaAGCCUucgaggucacCGACCUCg -3'
miRNA:   3'- -GGUCG----------GACCUAG-GC-UCGGA----------GCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 46939 0.67 0.484177
Target:  5'- uUCGGCCUGGcgCagcAGCUuggCGACCUUg -3'
miRNA:   3'- -GGUCGGACCuaGgc-UCGGa--GCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 40529 0.67 0.454661
Target:  5'- aCCGGcCCUGGAUCuCGAGCagguaCUUGuCCg- -3'
miRNA:   3'- -GGUC-GGACCUAG-GCUCG-----GAGCuGGag -5'
1515 5' -58.8 NC_001335.1 + 27302 0.67 0.44504
Target:  5'- -uGGCCUcGGcgcgGUCaCGGGCCUCGuCCUUc -3'
miRNA:   3'- ggUCGGA-CC----UAG-GCUCGGAGCuGGAG- -5'
1515 5' -58.8 NC_001335.1 + 10902 0.67 0.44504
Target:  5'- aUCGGCUUcucGAccUCCgGGGUCUCGGCCUCu -3'
miRNA:   3'- -GGUCGGAc--CU--AGG-CUCGGAGCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 47670 0.67 0.44504
Target:  5'- gCAGCUUGGAUuaCUGcGCCUCGugUggUCa -3'
miRNA:   3'- gGUCGGACCUA--GGCuCGGAGCugG--AG- -5'
1515 5' -58.8 NC_001335.1 + 2032 0.68 0.426146
Target:  5'- gCC-GCCgUGGAUCUGcGCCUCGAUg-- -3'
miRNA:   3'- -GGuCGG-ACCUAGGCuCGGAGCUGgag -5'
1515 5' -58.8 NC_001335.1 + 32956 0.68 0.426146
Target:  5'- gCCGGCCccGGcUCCuGAGCCUgaGACCg- -3'
miRNA:   3'- -GGUCGGa-CCuAGG-CUCGGAg-CUGGag -5'
1515 5' -58.8 NC_001335.1 + 3932 0.68 0.407738
Target:  5'- gCAGCCcaagGGAUCCGGugaaCUCGAUgUCa -3'
miRNA:   3'- gGUCGGa---CCUAGGCUcg--GAGCUGgAG- -5'
1515 5' -58.8 NC_001335.1 + 24243 0.68 0.407738
Target:  5'- gCCAGCUUGGAcaucgCCucagcgauAGCCUCGucgcggGCCUCa -3'
miRNA:   3'- -GGUCGGACCUa----GGc-------UCGGAGC------UGGAG- -5'
1515 5' -58.8 NC_001335.1 + 39051 0.68 0.407738
Target:  5'- -uGGCCaGGAUCCGGGUCUCccAgCUCg -3'
miRNA:   3'- ggUCGGaCCUAGGCUCGGAGc-UgGAG- -5'
1515 5' -58.8 NC_001335.1 + 31655 0.68 0.398722
Target:  5'- gCCAGCUcacGGAUCUcGGCauccgCGGCCUCg -3'
miRNA:   3'- -GGUCGGa--CCUAGGcUCGga---GCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 9842 0.68 0.38021
Target:  5'- -gAGCCUGGGaCCGucgggucGGCgUCGACCaUCg -3'
miRNA:   3'- ggUCGGACCUaGGC-------UCGgAGCUGG-AG- -5'
1515 5' -58.8 NC_001335.1 + 46244 0.69 0.339306
Target:  5'- aCCuGCCUGGGaucaucgCCGAGgCaUCGGCUUCc -3'
miRNA:   3'- -GGuCGGACCUa------GGCUCgG-AGCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 47635 0.72 0.21709
Target:  5'- cCC--UCUGGAgCCGAGCCUCGGUCUCg -3'
miRNA:   3'- -GGucGGACCUaGGCUCGGAGCUGGAG- -5'
1515 5' -58.8 NC_001335.1 + 43064 0.72 0.211544
Target:  5'- uCCAGgCUGGugacUUCGAGCCUCuGCCUg -3'
miRNA:   3'- -GGUCgGACCu---AGGCUCGGAGcUGGAg -5'
1515 5' -58.8 NC_001335.1 + 26583 0.78 0.091476
Target:  5'- aUCAGCCgGGGaCCGAGCCgaaCGGCCUUg -3'
miRNA:   3'- -GGUCGGaCCUaGGCUCGGa--GCUGGAG- -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.