miRNA display CGI


Results 1 - 20 of 37 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
27388 3' -53.7 NC_005857.1 + 50537 0.7 0.51913
Target:  5'- -aGACCGCAGCAGCcgAAGGG-UGGCGa -3'
miRNA:   3'- agUUGGCGUUGUCG--UUCUCgGUCGCg -5'
27388 3' -53.7 NC_005857.1 + 11258 0.67 0.71996
Target:  5'- -gAGCUGCGggaaGCAGCgAAGAaaaauggcGCCAGCGa -3'
miRNA:   3'- agUUGGCGU----UGUCG-UUCU--------CGGUCGCg -5'
27388 3' -53.7 NC_005857.1 + 38923 0.66 0.773306
Target:  5'- gCAugCGCA--GGCAuuuuGCCAGgGCa -3'
miRNA:   3'- aGUugGCGUugUCGUucu-CGGUCgCG- -5'
27388 3' -53.7 NC_005857.1 + 49923 1.13 0.000588
Target:  5'- cUCAACCGCAACAGCAAGAGCCAGCGCa -3'
miRNA:   3'- -AGUUGGCGUUGUCGUUCUCGGUCGCG- -5'
27388 3' -53.7 NC_005857.1 + 20487 0.77 0.208803
Target:  5'- aCGACgGCGcagaaauuuaaugGCAGCAGGAGCCuGCGg -3'
miRNA:   3'- aGUUGgCGU-------------UGUCGUUCUCGGuCGCg -5'
27388 3' -53.7 NC_005857.1 + 24113 0.77 0.208803
Target:  5'- aCGACgGCGcagaaauuuaacgGCAGCAGGAGCCuGCGg -3'
miRNA:   3'- aGUUGgCGU-------------UGUCGUUCUCGGuCGCg -5'
27388 3' -53.7 NC_005857.1 + 15332 0.72 0.406787
Target:  5'- aUCAAagggCGCAaaggugGCAGCucaAGCCAGCGCa -3'
miRNA:   3'- -AGUUg---GCGU------UGUCGuucUCGGUCGCG- -5'
27388 3' -53.7 NC_005857.1 + 42384 0.71 0.467321
Target:  5'- aCAGCCGCAuuCAGCAgacuauuuuGGAGCaauuccugacgguagAGCGCg -3'
miRNA:   3'- aGUUGGCGUu-GUCGU---------UCUCGg--------------UCGCG- -5'
27388 3' -53.7 NC_005857.1 + 9727 0.7 0.48711
Target:  5'- ---gUCGCAGCAGCGcaGGCUGGCGUc -3'
miRNA:   3'- aguuGGCGUUGUCGUucUCGGUCGCG- -5'
27388 3' -53.7 NC_005857.1 + 2365 0.67 0.708965
Target:  5'- aUAGCgCGCu-CGGUAuccGCCAGCGCa -3'
miRNA:   3'- aGUUG-GCGuuGUCGUucuCGGUCGCG- -5'
27388 3' -53.7 NC_005857.1 + 20969 0.67 0.671063
Target:  5'- gUCAGCCaGCAGgacaacaccaucagUAGCAucgGGAGCCGgaccacuGCGCu -3'
miRNA:   3'- -AGUUGG-CGUU--------------GUCGU---UCUCGGU-------CGCG- -5'
27388 3' -53.7 NC_005857.1 + 23392 0.67 0.660935
Target:  5'- aCAGCCcgAACAGCAcgaaaaggucgguaAGcAGCCAGgGCa -3'
miRNA:   3'- aGUUGGcgUUGUCGU--------------UC-UCGGUCgCG- -5'
27388 3' -53.7 NC_005857.1 + 18825 0.7 0.52999
Target:  5'- gUCGACCG--ACGcCGGGAGCCAGCa- -3'
miRNA:   3'- -AGUUGGCguUGUcGUUCUCGGUCGcg -5'
27388 3' -53.7 NC_005857.1 + 10864 0.67 0.694555
Target:  5'- aCAGCCGCAucgGCGGCcuaaAAGguuuugacccuuuuGGCCAGCu- -3'
miRNA:   3'- aGUUGGCGU---UGUCG----UUC--------------UCGGUCGcg -5'
27388 3' -53.7 NC_005857.1 + 26697 0.7 0.540931
Target:  5'- uUCAugCGCAGCAGCugcuGUgCGGCGUc -3'
miRNA:   3'- -AGUugGCGUUGUCGuucuCG-GUCGCG- -5'
27388 3' -53.7 NC_005857.1 + 19766 0.67 0.660935
Target:  5'- aCAGCCcgAACAGCAcgaaaaggucgguaAGcAGCCAGgGCa -3'
miRNA:   3'- aGUUGGcgUUGUCGU--------------UC-UCGGUCgCG- -5'
27388 3' -53.7 NC_005857.1 + 6587 0.67 0.708965
Target:  5'- --cGCCGC-GCAGC-GGAGCaucgAGCGUg -3'
miRNA:   3'- aguUGGCGuUGUCGuUCUCGg---UCGCG- -5'
27388 3' -53.7 NC_005857.1 + 19992 0.66 0.74166
Target:  5'- cCGACgGCGugGaGCGaagcgccggaGGAcaacGCCAGCGCg -3'
miRNA:   3'- aGUUGgCGUugU-CGU----------UCU----CGGUCGCG- -5'
27388 3' -53.7 NC_005857.1 + 13344 0.69 0.563031
Target:  5'- cCAguACCGCAGCGGCGAuGGCU-GCGa -3'
miRNA:   3'- aGU--UGGCGUUGUCGUUcUCGGuCGCg -5'
27388 3' -53.7 NC_005857.1 + 49973 0.68 0.641751
Target:  5'- cCAGCCGaAACGGCAcAGcGCCAucaGCGUa -3'
miRNA:   3'- aGUUGGCgUUGUCGU-UCuCGGU---CGCG- -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.