miRNA display CGI


Results 1 - 20 of 64 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
28171 3' -56.5 NC_005887.1 + 25988 0.68 0.414127
Target:  5'- uCGGCGACgCG-GUACAGCuuCACGGGc- -3'
miRNA:   3'- -GCCGUUG-GCgCAUGUCGc-GUGCCUau -5'
28171 3' -56.5 NC_005887.1 + 15564 0.7 0.353419
Target:  5'- gCGcGCGACCGCGcucgauucgcugaUcgccgaagcugagacGCAGCGCACGGGc- -3'
miRNA:   3'- -GC-CGUUGGCGC-------------A---------------UGUCGCGUGCCUau -5'
28171 3' -56.5 NC_005887.1 + 37448 0.69 0.359459
Target:  5'- gCGGCGcuuGCCuGCGcgguuUGCAGUGCGcCGGAUGc -3'
miRNA:   3'- -GCCGU---UGG-CGC-----AUGUCGCGU-GCCUAU- -5'
28171 3' -56.5 NC_005887.1 + 41730 0.69 0.359459
Target:  5'- gCGGCGAuCCGauccCGGCGCGCGGGc- -3'
miRNA:   3'- -GCCGUU-GGCgcauGUCGCGUGCCUau -5'
28171 3' -56.5 NC_005887.1 + 7590 0.69 0.359459
Target:  5'- aCGGCA-UCGCGUaaGCGGCGC-CGGu-- -3'
miRNA:   3'- -GCCGUuGGCGCA--UGUCGCGuGCCuau -5'
28171 3' -56.5 NC_005887.1 + 14345 0.69 0.368213
Target:  5'- gCGGCGAUCGUGaaGCAGCGUGcCGGGc- -3'
miRNA:   3'- -GCCGUUGGCGCa-UGUCGCGU-GCCUau -5'
28171 3' -56.5 NC_005887.1 + 32635 0.69 0.368213
Target:  5'- gCGGCAcgaugugaucgACCGUGUGCAGCuCACcGGUGu -3'
miRNA:   3'- -GCCGU-----------UGGCGCAUGUCGcGUGcCUAU- -5'
28171 3' -56.5 NC_005887.1 + 14541 0.69 0.39534
Target:  5'- uCGGCGG-CGCGUcgaucgGCAugucGCGCGCGGAa- -3'
miRNA:   3'- -GCCGUUgGCGCA------UGU----CGCGUGCCUau -5'
28171 3' -56.5 NC_005887.1 + 41265 0.69 0.39534
Target:  5'- uCGGCAAUgGCGccgucgACcuGCGCACGGGc- -3'
miRNA:   3'- -GCCGUUGgCGCa-----UGu-CGCGUGCCUau -5'
28171 3' -56.5 NC_005887.1 + 29365 0.7 0.350852
Target:  5'- cCGGCAGCCGCGaGCGGCauGCccuCGGc-- -3'
miRNA:   3'- -GCCGUUGGCGCaUGUCG--CGu--GCCuau -5'
28171 3' -56.5 NC_005887.1 + 26213 0.7 0.342392
Target:  5'- gCGGUGGCCgGCcUGCagcuGGCGCACGGGUc -3'
miRNA:   3'- -GCCGUUGG-CGcAUG----UCGCGUGCCUAu -5'
28171 3' -56.5 NC_005887.1 + 4183 0.7 0.325917
Target:  5'- gCGGCGacaugACCGCGaccgaagugcUGCAGCGCGCgcaGGAg- -3'
miRNA:   3'- -GCCGU-----UGGCGC----------AUGUCGCGUG---CCUau -5'
28171 3' -56.5 NC_005887.1 + 538 0.75 0.154862
Target:  5'- uCGGCcGCCGCGcGCcGCGC-CGGAUAc -3'
miRNA:   3'- -GCCGuUGGCGCaUGuCGCGuGCCUAU- -5'
28171 3' -56.5 NC_005887.1 + 34702 0.74 0.182364
Target:  5'- gGGCGGCCGuCGUcgcgcuuGCGGUGCGCGGcgAu -3'
miRNA:   3'- gCCGUUGGC-GCA-------UGUCGCGUGCCuaU- -5'
28171 3' -56.5 NC_005887.1 + 26421 0.73 0.197946
Target:  5'- uGGCGGCCGCGcgggaacgcgcgcUGCAGCcGCGCGaGAUc -3'
miRNA:   3'- gCCGUUGGCGC-------------AUGUCG-CGUGC-CUAu -5'
28171 3' -56.5 NC_005887.1 + 9253 0.72 0.233225
Target:  5'- uCGGCGAUCGCGUcuauCuGUGCACGGcgGu -3'
miRNA:   3'- -GCCGUUGGCGCAu---GuCGCGUGCCuaU- -5'
28171 3' -56.5 NC_005887.1 + 7063 0.72 0.245895
Target:  5'- aCGGCAuuCCG-GUGCAGCGCACcGAc- -3'
miRNA:   3'- -GCCGUu-GGCgCAUGUCGCGUGcCUau -5'
28171 3' -56.5 NC_005887.1 + 15257 0.71 0.27294
Target:  5'- aGGCAGCCGCaGUGCuGCGCGgCGa--- -3'
miRNA:   3'- gCCGUUGGCG-CAUGuCGCGU-GCcuau -5'
28171 3' -56.5 NC_005887.1 + 11546 0.71 0.302322
Target:  5'- -aGCAGCUcgGCGcGCAGCGCGCGGcgGu -3'
miRNA:   3'- gcCGUUGG--CGCaUGUCGCGUGCCuaU- -5'
28171 3' -56.5 NC_005887.1 + 18360 0.7 0.317903
Target:  5'- gGGCGAcuuCCGCGUagACGGCGCGcCGGc-- -3'
miRNA:   3'- gCCGUU---GGCGCA--UGUCGCGU-GCCuau -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.