miRNA display CGI


Results 1 - 20 of 31 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
12405 3' -58.9 NC_003324.1 + 40338 0.66 0.577266
Target:  5'- uUCGGCgCUGCagcagUCUUGCCgGCUUUCg -3'
miRNA:   3'- -GGCCGaGGUGg----AGGACGGgCGAAAGg -5'
12405 3' -58.9 NC_003324.1 + 17510 0.66 0.577266
Target:  5'- aCUGGUacUCCGCCU--UGCCCuGCagUUCCc -3'
miRNA:   3'- -GGCCG--AGGUGGAggACGGG-CGa-AAGG- -5'
12405 3' -58.9 NC_003324.1 + 14435 0.66 0.556312
Target:  5'- cCCGGCUCUggcGCC-CaUGCCgGCg-UCCa -3'
miRNA:   3'- -GGCCGAGG---UGGaGgACGGgCGaaAGG- -5'
12405 3' -58.9 NC_003324.1 + 40239 0.66 0.556312
Target:  5'- gCUGGCUCCcgcucgacuGCCgCCuUGCgUGCggUCCg -3'
miRNA:   3'- -GGCCGAGG---------UGGaGG-ACGgGCGaaAGG- -5'
12405 3' -58.9 NC_003324.1 + 45917 0.66 0.550067
Target:  5'- gCCGuuUCCACCUCaCUGUucucgCCGCagccccucaccuuccUUUCCg -3'
miRNA:   3'- -GGCcgAGGUGGAG-GACG-----GGCG---------------AAAGG- -5'
12405 3' -58.9 NC_003324.1 + 37530 0.66 0.545916
Target:  5'- cCCGGCUCCAUCccgCgCUGUgCGCg---- -3'
miRNA:   3'- -GGCCGAGGUGGa--G-GACGgGCGaaagg -5'
12405 3' -58.9 NC_003324.1 + 33371 0.66 0.545916
Target:  5'- gCCGGCUCCGCgcgcaaCUCCgGCCacuggcggagaaCGCUUg-- -3'
miRNA:   3'- -GGCCGAGGUG------GAGGaCGG------------GCGAAagg -5'
12405 3' -58.9 NC_003324.1 + 26648 0.66 0.545916
Target:  5'- gCCGGCgagggUgACa-CCUGCCUGCagaaUUUCCg -3'
miRNA:   3'- -GGCCGa----GgUGgaGGACGGGCG----AAAGG- -5'
12405 3' -58.9 NC_003324.1 + 17451 0.66 0.545916
Target:  5'- cCCGGUgaaCCACUgcucaccaagUCCUGCCguCGCg--CCg -3'
miRNA:   3'- -GGCCGa--GGUGG----------AGGACGG--GCGaaaGG- -5'
12405 3' -58.9 NC_003324.1 + 30043 0.66 0.526344
Target:  5'- cCCGGCUgCCGCCgcuacgcaggacgccCCUcGCCCGU---CCg -3'
miRNA:   3'- -GGCCGA-GGUGGa--------------GGA-CGGGCGaaaGG- -5'
12405 3' -58.9 NC_003324.1 + 36650 0.67 0.50201
Target:  5'- cCCGGCgaaggugCCGCCggagaugcgagaugUCUUGUCCGgUaUCCg -3'
miRNA:   3'- -GGCCGa------GGUGG--------------AGGACGGGCgAaAGG- -5'
12405 3' -58.9 NC_003324.1 + 24063 0.67 0.495005
Target:  5'- gCgGGCUUUACCUUCUcGCCggugCGCUgcgCCa -3'
miRNA:   3'- -GgCCGAGGUGGAGGA-CGG----GCGAaa-GG- -5'
12405 3' -58.9 NC_003324.1 + 53812 0.67 0.475242
Target:  5'- gCGGcCUCCGgUUCCUGUacgcgCUGCUUcaUCCa -3'
miRNA:   3'- gGCC-GAGGUgGAGGACG-----GGCGAA--AGG- -5'
12405 3' -58.9 NC_003324.1 + 28927 0.67 0.465509
Target:  5'- uCCGGCUCCugCUUUgGCgUGCcg-CCu -3'
miRNA:   3'- -GGCCGAGGugGAGGaCGgGCGaaaGG- -5'
12405 3' -58.9 NC_003324.1 + 28594 0.68 0.446361
Target:  5'- gCGGUUCgCgGCUUCC-GCCCGCUgucgCCc -3'
miRNA:   3'- gGCCGAG-G-UGGAGGaCGGGCGAaa--GG- -5'
12405 3' -58.9 NC_003324.1 + 52168 0.68 0.436953
Target:  5'- gUCGGCgUCCuuacggcagGCCUCgUGCCaCGCgaagUUCUg -3'
miRNA:   3'- -GGCCG-AGG---------UGGAGgACGG-GCGa---AAGG- -5'
12405 3' -58.9 NC_003324.1 + 9957 0.68 0.432292
Target:  5'- aCCGGCguaaccucguauccgCCACaCcccgcccaaaacgguUCCUGCgCCGCUcaUUCCg -3'
miRNA:   3'- -GGCCGa--------------GGUG-G---------------AGGACG-GGCGA--AAGG- -5'
12405 3' -58.9 NC_003324.1 + 31885 0.68 0.431363
Target:  5'- -gGGCUUCGCgCUCCggacaagaugucgaGCCCGCUcUUCa -3'
miRNA:   3'- ggCCGAGGUG-GAGGa-------------CGGGCGAaAGG- -5'
12405 3' -58.9 NC_003324.1 + 48371 0.69 0.404057
Target:  5'- gCCGGCUUCgcaguugcccuuggcGCCUaCCUGCUCgGCUgcggCCu -3'
miRNA:   3'- -GGCCGAGG---------------UGGA-GGACGGG-CGAaa--GG- -5'
12405 3' -58.9 NC_003324.1 + 55122 0.69 0.391693
Target:  5'- gCGGCagcccagccgUCCGCCUugCCUGCCCGgcgcgacaccuCUUUCg -3'
miRNA:   3'- gGCCG----------AGGUGGA--GGACGGGC-----------GAAAGg -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.