miRNA display CGI


Results 1 - 20 of 23 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
3137 3' -52.7 NC_001493.1 + 27631 0.66 0.981528
Target:  5'- cGGGAUCGGC--CCCGAuaccaCCggcCGg -3'
miRNA:   3'- -CCCUAGCCGaaGGGCUuag--GGaaaGC- -5'
3137 3' -52.7 NC_001493.1 + 25726 0.66 0.980243
Target:  5'- cGGAUCGaGgUUCCCGGuuuuuccccgaagugAUCCCUg--- -3'
miRNA:   3'- cCCUAGC-CgAAGGGCU---------------UAGGGAaagc -5'
3137 3' -52.7 NC_001493.1 + 87170 0.66 0.976987
Target:  5'- cGGGAUCGGCa--CCGAGUUgCa---- -3'
miRNA:   3'- -CCCUAGCCGaagGGCUUAGgGaaagc -5'
3137 3' -52.7 NC_001493.1 + 104643 0.66 0.976987
Target:  5'- cGGGAaugUGGCUaucauucauUCCCGAGUCUaggcUCGu -3'
miRNA:   3'- -CCCUa--GCCGA---------AGGGCUUAGGgaa-AGC- -5'
3137 3' -52.7 NC_001493.1 + 118511 0.66 0.976987
Target:  5'- gGGGGUgaGGUucUUCCCGAGUCCg----- -3'
miRNA:   3'- -CCCUAg-CCG--AAGGGCUUAGGgaaagc -5'
3137 3' -52.7 NC_001493.1 + 2957 0.66 0.976987
Target:  5'- gGGGGUgaGGUucUUCCCGAGUCCg----- -3'
miRNA:   3'- -CCCUAg-CCG--AAGGGCUUAGGgaaagc -5'
3137 3' -52.7 NC_001493.1 + 48275 0.66 0.971675
Target:  5'- cGGGGUCGGgUgCgCCGAggCCCUccacgCGg -3'
miRNA:   3'- -CCCUAGCCgAaG-GGCUuaGGGAaa---GC- -5'
3137 3' -52.7 NC_001493.1 + 81990 0.67 0.965533
Target:  5'- gGGGAUCGGUUcggacgccgucUCCCGAAUggagaCCgagugCGa -3'
miRNA:   3'- -CCCUAGCCGA-----------AGGGCUUAg----GGaaa--GC- -5'
3137 3' -52.7 NC_001493.1 + 91645 0.67 0.954655
Target:  5'- gGGGAUCGGuCUcCCCGuugGUCUCUccUCu -3'
miRNA:   3'- -CCCUAGCC-GAaGGGCu--UAGGGAa-AGc -5'
3137 3' -52.7 NC_001493.1 + 8276 0.67 0.950565
Target:  5'- cGGGUCgGGCUcUCCGggUCCuCUcucUCGg -3'
miRNA:   3'- cCCUAG-CCGAaGGGCuuAGG-GAa--AGC- -5'
3137 3' -52.7 NC_001493.1 + 123830 0.67 0.950565
Target:  5'- cGGGUCgGGCUcUCCGggUCCuCUcucUCGg -3'
miRNA:   3'- cCCUAG-CCGAaGGGCuuAGG-GAa--AGC- -5'
3137 3' -52.7 NC_001493.1 + 7917 0.68 0.92647
Target:  5'- aGGAgcgUGGCgggUCCCGAGUUUCUccaauuUUCGg -3'
miRNA:   3'- cCCUa--GCCGa--AGGGCUUAGGGA------AAGC- -5'
3137 3' -52.7 NC_001493.1 + 123471 0.68 0.92647
Target:  5'- aGGAgcgUGGCgggUCCCGAGUUUCUccaauuUUCGg -3'
miRNA:   3'- cCCUa--GCCGa--AGGGCUUAGGGA------AAGC- -5'
3137 3' -52.7 NC_001493.1 + 22256 0.69 0.909053
Target:  5'- uGGG-CGGUUUCCCGAAUgUCgcUCGa -3'
miRNA:   3'- cCCUaGCCGAAGGGCUUAgGGaaAGC- -5'
3137 3' -52.7 NC_001493.1 + 32783 0.69 0.90017
Target:  5'- cGGGAUCGGCacgcgcggauauggcCCCGGaccguaaacgcccGUCCCggUCGc -3'
miRNA:   3'- -CCCUAGCCGaa-------------GGGCU-------------UAGGGaaAGC- -5'
3137 3' -52.7 NC_001493.1 + 39484 0.7 0.875188
Target:  5'- cGGGAUCGGCgucagcgUCacccgcgucacgCCGGAUCCCa---- -3'
miRNA:   3'- -CCCUAGCCGa------AG------------GGCUUAGGGaaagc -5'
3137 3' -52.7 NC_001493.1 + 28211 0.71 0.834882
Target:  5'- -aGAUCGGCcacCCCGGucgcgagcagacgAUCCCUUUCa -3'
miRNA:   3'- ccCUAGCCGaa-GGGCU-------------UAGGGAAAGc -5'
3137 3' -52.7 NC_001493.1 + 88676 0.72 0.791483
Target:  5'- gGGGAUauugagGGuCUcCCCGAAUCCCUUUg- -3'
miRNA:   3'- -CCCUAg-----CC-GAaGGGCUUAGGGAAAgc -5'
3137 3' -52.7 NC_001493.1 + 15740 0.72 0.772682
Target:  5'- uGGAaCGGCUgaUCCagGAGUCCCUcUUCGg -3'
miRNA:   3'- cCCUaGCCGA--AGGg-CUUAGGGA-AAGC- -5'
3137 3' -52.7 NC_001493.1 + 131294 0.72 0.772682
Target:  5'- uGGAaCGGCUgaUCCagGAGUCCCUcUUCGg -3'
miRNA:   3'- cCCUaGCCGA--AGGg-CUUAGGGA-AAGC- -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.