miRNA display CGI


Results 1 - 15 of 15 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
8169 3' -58.3 NC_001978.2 + 1897 0.66 0.478986
Target:  5'- uCUCGACGG-CCGGacccgaccCCGAcggacccuuugccgcACUGUGCGa -3'
miRNA:   3'- -GAGCUGCCaGGCC--------GGCU---------------UGGUACGCa -5'
8169 3' -58.3 NC_001978.2 + 7939 0.66 0.474959
Target:  5'- gUCGAgccCGGaacgCCGGUCGAGCCGUaauggcacaGCGg -3'
miRNA:   3'- gAGCU---GCCa---GGCCGGCUUGGUA---------CGCa -5'
8169 3' -58.3 NC_001978.2 + 3149 0.67 0.445324
Target:  5'- gCUCGACuaUCCGaacGCUGAGCCggGCGg -3'
miRNA:   3'- -GAGCUGccAGGC---CGGCUUGGuaCGCa -5'
8169 3' -58.3 NC_001978.2 + 13873 0.67 0.416751
Target:  5'- -aCGgguGCGGcUCCGGCCGucGCUAUGgCGUa -3'
miRNA:   3'- gaGC---UGCC-AGGCCGGCu-UGGUAC-GCA- -5'
8169 3' -58.3 NC_001978.2 + 32088 0.67 0.416751
Target:  5'- aUUGcCGuUCCGGCCGA-CCGUGcCGUg -3'
miRNA:   3'- gAGCuGCcAGGCCGGCUuGGUAC-GCA- -5'
8169 3' -58.3 NC_001978.2 + 9682 0.67 0.407479
Target:  5'- gCUUGACGGgcUCCGGaagaucaaGGACCcgGCGg -3'
miRNA:   3'- -GAGCUGCC--AGGCCgg------CUUGGuaCGCa -5'
8169 3' -58.3 NC_001978.2 + 33835 0.68 0.383985
Target:  5'- gCUCGACuGUCgGGCCGAcggcguuacccggguGCCgaccGUGCGc -3'
miRNA:   3'- -GAGCUGcCAGgCCGGCU---------------UGG----UACGCa -5'
8169 3' -58.3 NC_001978.2 + 25203 0.68 0.380451
Target:  5'- -aCGACcugaaGGUUCGGCUGAcauGCCGUGCc- -3'
miRNA:   3'- gaGCUG-----CCAGGCCGGCU---UGGUACGca -5'
8169 3' -58.3 NC_001978.2 + 5540 0.69 0.346327
Target:  5'- -aCGcCGGUCCGGCCaucgguGAcGCCAUGgGUc -3'
miRNA:   3'- gaGCuGCCAGGCCGG------CU-UGGUACgCA- -5'
8169 3' -58.3 NC_001978.2 + 22980 0.7 0.277797
Target:  5'- --gGAuUGGUCCGGCCGGACCcuagucgcGCGUc -3'
miRNA:   3'- gagCU-GCCAGGCCGGCUUGGua------CGCA- -5'
8169 3' -58.3 NC_001978.2 + 12338 0.71 0.24463
Target:  5'- -cCGACGGUCCcgacacGGCCGGACaacGCGg -3'
miRNA:   3'- gaGCUGCCAGG------CCGGCUUGguaCGCa -5'
8169 3' -58.3 NC_001978.2 + 11006 0.72 0.214819
Target:  5'- -aCGcAUGGUUCGGCCGGACCGU-CGa -3'
miRNA:   3'- gaGC-UGCCAGGCCGGCUUGGUAcGCa -5'
8169 3' -58.3 NC_001978.2 + 22914 0.73 0.193263
Target:  5'- -gCGACuagGGUCCGGCCGGACCAa---- -3'
miRNA:   3'- gaGCUG---CCAGGCCGGCUUGGUacgca -5'
8169 3' -58.3 NC_001978.2 + 20766 0.75 0.127109
Target:  5'- uUCGACGGUCCGGaCCGcaaagagucccuuGCCGUcGCGUc -3'
miRNA:   3'- gAGCUGCCAGGCC-GGCu------------UGGUA-CGCA- -5'
8169 3' -58.3 NC_001978.2 + 10940 1.06 0.000619
Target:  5'- gCUCGACGGUCCGGCCGAACCAUGCGUu -3'
miRNA:   3'- -GAGCUGCCAGGCCGGCUUGGUACGCA- -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.