miRNA display CGI


Results 21 - 40 of 46 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
12834 3' -56.2 NC_003387.1 + 46937 0.67 0.590508
Target:  5'- -gCGGGCGgcuuguucuggucacGCCAgGCGAUCAgcucGUCGg -3'
miRNA:   3'- gaGCCCGU---------------CGGUgUGCUAGUac--CAGC- -5'
12834 3' -56.2 NC_003387.1 + 5215 0.67 0.586158
Target:  5'- cCUCGGGUA-CCGCACGAUgcUGcUCGa -3'
miRNA:   3'- -GAGCCCGUcGGUGUGCUAguACcAGC- -5'
12834 3' -56.2 NC_003387.1 + 50958 0.67 0.586158
Target:  5'- gCUCGGGCGccagcgccGCCGC-CGGgcUCAUGcuGUCGa -3'
miRNA:   3'- -GAGCCCGU--------CGGUGuGCU--AGUAC--CAGC- -5'
12834 3' -56.2 NC_003387.1 + 48540 0.67 0.586158
Target:  5'- gUCGGGCGGCUgAUACGAgcCGUugcGGUCu -3'
miRNA:   3'- gAGCCCGUCGG-UGUGCUa-GUA---CCAGc -5'
12834 3' -56.2 NC_003387.1 + 26229 0.67 0.586158
Target:  5'- cCUCGGGCagcgcauucuuAGCCGCAacaccgccgcCGAUCAgaaUGGUg- -3'
miRNA:   3'- -GAGCCCG-----------UCGGUGU----------GCUAGU---ACCAgc -5'
12834 3' -56.2 NC_003387.1 + 14737 0.67 0.575311
Target:  5'- gUCGcGCAGCCAggcgucgACGAUC-UGGUCGu -3'
miRNA:   3'- gAGCcCGUCGGUg------UGCUAGuACCAGC- -5'
12834 3' -56.2 NC_003387.1 + 33969 0.67 0.564511
Target:  5'- gUCGGGUAugagcuGCCGCAgcgGGUCGcGGUCGa -3'
miRNA:   3'- gAGCCCGU------CGGUGUg--CUAGUaCCAGC- -5'
12834 3' -56.2 NC_003387.1 + 9714 0.67 0.564511
Target:  5'- gCUCGGGguGUUcaGCGCGuacgggucggcGUCAaGGUCGg -3'
miRNA:   3'- -GAGCCCguCGG--UGUGC-----------UAGUaCCAGC- -5'
12834 3' -56.2 NC_003387.1 + 6326 0.68 0.553764
Target:  5'- -cUGGGCGGCCAgGCGAUCGgcaagaaGcUCGa -3'
miRNA:   3'- gaGCCCGUCGGUgUGCUAGUa------CcAGC- -5'
12834 3' -56.2 NC_003387.1 + 34419 0.68 0.54308
Target:  5'- -cCGGGC-GCCACcgccGCGG-CcgGGUCGg -3'
miRNA:   3'- gaGCCCGuCGGUG----UGCUaGuaCCAGC- -5'
12834 3' -56.2 NC_003387.1 + 42010 0.68 0.54308
Target:  5'- gUgGGGCcGCCugGCcGUgAUGGUCGc -3'
miRNA:   3'- gAgCCCGuCGGugUGcUAgUACCAGC- -5'
12834 3' -56.2 NC_003387.1 + 28848 0.68 0.532463
Target:  5'- gUCGGcCAGCCACACcgGGUCGccGGUCc -3'
miRNA:   3'- gAGCCcGUCGGUGUG--CUAGUa-CCAGc -5'
12834 3' -56.2 NC_003387.1 + 49790 0.68 0.532463
Target:  5'- -gCGGGUuggcGCCgaaccgcgACACGAUCAgccGGUCGa -3'
miRNA:   3'- gaGCCCGu---CGG--------UGUGCUAGUa--CCAGC- -5'
12834 3' -56.2 NC_003387.1 + 46588 0.68 0.521923
Target:  5'- cCUCGGGCAgggucGCCAgCACcggcaGGUgCGUGGUCu -3'
miRNA:   3'- -GAGCCCGU-----CGGU-GUG-----CUA-GUACCAGc -5'
12834 3' -56.2 NC_003387.1 + 42829 0.69 0.501093
Target:  5'- ---cGGCGGCgAgGCGAUCAUGG-CGg -3'
miRNA:   3'- gagcCCGUCGgUgUGCUAGUACCaGC- -5'
12834 3' -56.2 NC_003387.1 + 37145 0.69 0.480638
Target:  5'- gUUGGGCAcucGCUGgGCGGgcgCAUGGUCa -3'
miRNA:   3'- gAGCCCGU---CGGUgUGCUa--GUACCAGc -5'
12834 3' -56.2 NC_003387.1 + 48810 0.69 0.480638
Target:  5'- -cCGGGCGuuagcacCCAgGCGGUCAgGGUCGg -3'
miRNA:   3'- gaGCCCGUc------GGUgUGCUAGUaCCAGC- -5'
12834 3' -56.2 NC_003387.1 + 12978 0.69 0.448788
Target:  5'- -cCGGGCGGCCACcgACGAcgagcuuaaggcgUCGUcgggcaaGGUCGa -3'
miRNA:   3'- gaGCCCGUCGGUG--UGCU-------------AGUA-------CCAGC- -5'
12834 3' -56.2 NC_003387.1 + 42020 0.69 0.446836
Target:  5'- gCUCGcccggcuugauaccGGCGGCCACcgccgagGCGGcCGUGGUCGc -3'
miRNA:   3'- -GAGC--------------CCGUCGGUG-------UGCUaGUACCAGC- -5'
12834 3' -56.2 NC_003387.1 + 36852 0.7 0.431392
Target:  5'- cCUCGGGCAGCCACAUGuacgcgCGcacGUUGc -3'
miRNA:   3'- -GAGCCCGUCGGUGUGCua----GUac-CAGC- -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.