miRNA display CGI


Results 1 - 20 of 22 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
8038 3' -50.8 NC_001973.1 + 121695 0.66 0.997103
Target:  5'- gUACgCGAGcUCGGCGgcGgcGUCGUCGu -3'
miRNA:   3'- gGUG-GCUCaAGCCGUa-CuaCAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 68978 0.66 0.996589
Target:  5'- gCACCGAGagcgaUUCGGCGaacccGUCGUCu -3'
miRNA:   3'- gGUGGCUC-----AAGCCGUacua-CAGUAGc -5'
8038 3' -50.8 NC_001973.1 + 80061 0.66 0.996589
Target:  5'- gCGCCGGGUccuccucuuugCGGCGcuUGGccGUCGUCGa -3'
miRNA:   3'- gGUGGCUCAa----------GCCGU--ACUa-CAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 4901 0.66 0.996589
Target:  5'- aCGCCGGGUUCGuuauCGUGAcGgaaaCGUCGg -3'
miRNA:   3'- gGUGGCUCAAGCc---GUACUaCa---GUAGC- -5'
8038 3' -50.8 NC_001973.1 + 134099 0.67 0.991707
Target:  5'- uCgGCCaGGUUCGGCGgcacguaGAaGUCGUCGu -3'
miRNA:   3'- -GgUGGcUCAAGCCGUa------CUaCAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 120378 0.69 0.966976
Target:  5'- aCGgCGAGUUUGGCGgggcGAUGUCcgCc -3'
miRNA:   3'- gGUgGCUCAAGCCGUa---CUACAGuaGc -5'
8038 3' -50.8 NC_001973.1 + 111544 0.7 0.952401
Target:  5'- aCGCCG---UCGGCAUGGUGgUGUCGa -3'
miRNA:   3'- gGUGGCucaAGCCGUACUACaGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 94904 0.7 0.952401
Target:  5'- cCCGCCGAGccgacCGGCAaggUGGUGgccgccuacuUCGUCGa -3'
miRNA:   3'- -GGUGGCUCaa---GCCGU---ACUAC----------AGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 114533 0.71 0.943703
Target:  5'- -gACaCGAGUaucgcggCGGCAUGAUcUCAUCGg -3'
miRNA:   3'- ggUG-GCUCAa------GCCGUACUAcAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 81028 0.72 0.91171
Target:  5'- aCCGCCGAcggCGGUAUGcgGgccgCGUCGa -3'
miRNA:   3'- -GGUGGCUcaaGCCGUACuaCa---GUAGC- -5'
8038 3' -50.8 NC_001973.1 + 40872 0.73 0.854736
Target:  5'- uCCGCCGAGcUCgaguuuaGGCAUGAUcUCAUCu -3'
miRNA:   3'- -GGUGGCUCaAG-------CCGUACUAcAGUAGc -5'
8038 3' -50.8 NC_001973.1 + 53871 0.74 0.813444
Target:  5'- gCCGCCGAGcgCGGCGgccGUGgccgCAUCGu -3'
miRNA:   3'- -GGUGGCUCaaGCCGUac-UACa---GUAGC- -5'
8038 3' -50.8 NC_001973.1 + 121543 0.75 0.786078
Target:  5'- aCCACCGAGcggcgUCGGCgcguGUGGUGgaacacguacUCGUCGg -3'
miRNA:   3'- -GGUGGCUCa----AGCCG----UACUAC----------AGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 72501 0.76 0.737724
Target:  5'- uCgGCCGGGUcgCGGCaAUGAUGUCAUa- -3'
miRNA:   3'- -GgUGGCUCAa-GCCG-UACUACAGUAgc -5'
8038 3' -50.8 NC_001973.1 + 114772 0.76 0.707488
Target:  5'- -aGCUcAGUUUaGGCGUGAUGUCAUCGg -3'
miRNA:   3'- ggUGGcUCAAG-CCGUACUACAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 40950 0.78 0.64444
Target:  5'- uCCGCCGAGcUCgaguuuaGGCAUGAUcUCAUCGg -3'
miRNA:   3'- -GGUGGCUCaAG-------CCGUACUAcAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 41029 0.78 0.64444
Target:  5'- uCCGCCGAGcUCaguuuggGGCAUGAUcUCAUCGg -3'
miRNA:   3'- -GGUGGCUCaAG-------CCGUACUAcAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 114842 0.79 0.582025
Target:  5'- uCCGCCGAGcucgaguUUgGGCAUGAUcUCAUCGg -3'
miRNA:   3'- -GGUGGCUC-------AAgCCGUACUAcAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 114610 0.89 0.172016
Target:  5'- uCCGCCGAGcUCaaguuaaGGCAUGAUGUCAUCGg -3'
miRNA:   3'- -GGUGGCUCaAG-------CCGUACUACAGUAGC- -5'
8038 3' -50.8 NC_001973.1 + 114688 0.9 0.155092
Target:  5'- cCCGCCGAGcucgaguUUgGGCGUGAUGUCAUCGg -3'
miRNA:   3'- -GGUGGCUC-------AAgCCGUACUACAGUAGC- -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.