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
13448 3' -53.9 NC_003409.1 + 73506 0.66 0.952041
Target:  5'- --uGACaaaCUGGCUCAGGGCAGGg- -3'
miRNA:   3'- guuUUGcagGACCGGGUCCUGUCUgu -5'
13448 3' -53.9 NC_003409.1 + 95598 0.66 0.943232
Target:  5'- aGAGGCGUCCUccagcGGCCCAaagGGACcaACu -3'
miRNA:   3'- gUUUUGCAGGA-----CCGGGU---CCUGucUGu -5'
13448 3' -53.9 NC_003409.1 + 7291 0.66 0.943232
Target:  5'- uGAGACauauagGUCC-GGCCCAGGuACGGGu- -3'
miRNA:   3'- gUUUUG------CAGGaCCGGGUCC-UGUCUgu -5'
13448 3' -53.9 NC_003409.1 + 128255 0.66 0.943232
Target:  5'- aCGGGGCGUgaUGGCgCAGGugAGgGCAg -3'
miRNA:   3'- -GUUUUGCAggACCGgGUCCugUC-UGU- -5'
13448 3' -53.9 NC_003409.1 + 8335 0.66 0.938456
Target:  5'- aGAGAUGaUCUGGCCCAGcAUAGAg- -3'
miRNA:   3'- gUUUUGCaGGACCGGGUCcUGUCUgu -5'
13448 3' -53.9 NC_003409.1 + 123882 0.66 0.938456
Target:  5'- -uGGGCGacuggUCUGGUCCAgGGugGGGCAa -3'
miRNA:   3'- guUUUGCa----GGACCGGGU-CCugUCUGU- -5'
13448 3' -53.9 NC_003409.1 + 77269 0.66 0.93343
Target:  5'- ---cGCGUaCCUGacauggccgcGCCCAGGgGCAGACc -3'
miRNA:   3'- guuuUGCA-GGAC----------CGGGUCC-UGUCUGu -5'
13448 3' -53.9 NC_003409.1 + 13889 0.66 0.930294
Target:  5'- -cGAGCGUCaaGGCCgCggccaagcuuauuucGGGGCAGGCGa -3'
miRNA:   3'- guUUUGCAGgaCCGG-G---------------UCCUGUCUGU- -5'
13448 3' -53.9 NC_003409.1 + 7442 0.66 0.928153
Target:  5'- uUAGcuCGUUCUcaaagaGGCCCcGGACAGGCu -3'
miRNA:   3'- -GUUuuGCAGGA------CCGGGuCCUGUCUGu -5'
13448 3' -53.9 NC_003409.1 + 110085 0.67 0.916843
Target:  5'- cCAGAGCGuUCCUGcGCCUGGccGAcCAGGCGc -3'
miRNA:   3'- -GUUUUGC-AGGAC-CGGGUC--CU-GUCUGU- -5'
13448 3' -53.9 NC_003409.1 + 68311 0.67 0.898002
Target:  5'- gAAGACGUC---GUCUGGGGCAGACAu -3'
miRNA:   3'- gUUUUGCAGgacCGGGUCCUGUCUGU- -5'
13448 3' -53.9 NC_003409.1 + 108940 0.68 0.891231
Target:  5'- -cAGACGcagCC-GGCuCCGGGACAGugGc -3'
miRNA:   3'- guUUUGCa--GGaCCG-GGUCCUGUCugU- -5'
13448 3' -53.9 NC_003409.1 + 108318 0.68 0.88422
Target:  5'- aGGGACuGUCCUGGCUCGa-GCAGACc -3'
miRNA:   3'- gUUUUG-CAGGACCGGGUccUGUCUGu -5'
13448 3' -53.9 NC_003409.1 + 88578 0.68 0.876974
Target:  5'- cCAAAACGUCCauacaccgucUGuCCCAcGACAGGCGa -3'
miRNA:   3'- -GUUUUGCAGG----------ACcGGGUcCUGUCUGU- -5'
13448 3' -53.9 NC_003409.1 + 33289 0.68 0.861796
Target:  5'- gCAGGACGUCCaGGCCCucuucuguugccAGG-CGGAgGg -3'
miRNA:   3'- -GUUUUGCAGGaCCGGG------------UCCuGUCUgU- -5'
13448 3' -53.9 NC_003409.1 + 21876 0.7 0.764368
Target:  5'- gGGAGCGUCCUGGCaUAGacCGGACAa -3'
miRNA:   3'- gUUUUGCAGGACCGgGUCcuGUCUGU- -5'
13448 3' -53.9 NC_003409.1 + 130467 0.71 0.744678
Target:  5'- uGGAACG-CCaUGGCCCacgGGGACAugGACAg -3'
miRNA:   3'- gUUUUGCaGG-ACCGGG---UCCUGU--CUGU- -5'
13448 3' -53.9 NC_003409.1 + 30270 0.71 0.724573
Target:  5'- gCAAAACGUCCUcGUCCAuuguGGACGGuCAc -3'
miRNA:   3'- -GUUUUGCAGGAcCGGGU----CCUGUCuGU- -5'
13448 3' -53.9 NC_003409.1 + 106118 0.72 0.673017
Target:  5'- ---uGCGUCCUGGC--GGGcACAGACAa -3'
miRNA:   3'- guuuUGCAGGACCGggUCC-UGUCUGU- -5'
13448 3' -53.9 NC_003409.1 + 113460 0.73 0.610077
Target:  5'- cCAAcAgGUgCCUGGCCCAGGA-GGGCAu -3'
miRNA:   3'- -GUUuUgCA-GGACCGGGUCCUgUCUGU- -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.