miRNA display CGI


Results 1 - 20 of 26 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
23504 5' -60.6 NC_005259.1 + 61012 0.66 0.516638
Target:  5'- cGACGGUGagcuuccaCUCGGUG-GCGGCGAg-- -3'
miRNA:   3'- cCUGCCAC--------GGGUCACuCGCCGCUgga -5'
23504 5' -60.6 NC_005259.1 + 783 0.66 0.496889
Target:  5'- aGGCGGcUGCCCucGGuUGGGUGGCcaaggGGCCg -3'
miRNA:   3'- cCUGCC-ACGGG--UC-ACUCGCCG-----CUGGa -5'
23504 5' -60.6 NC_005259.1 + 7183 0.66 0.477486
Target:  5'- cGGCGaGUGCCCGGccuGCGGaCGcACCg -3'
miRNA:   3'- cCUGC-CACGGGUCacuCGCC-GC-UGGa -5'
23504 5' -60.6 NC_005259.1 + 67238 0.66 0.477486
Target:  5'- cGGCGGUGUagGGguUGAGCGG-GGCCUc -3'
miRNA:   3'- cCUGCCACGggUC--ACUCGCCgCUGGA- -5'
23504 5' -60.6 NC_005259.1 + 58777 0.67 0.467926
Target:  5'- cGGGCGcuGUGCgCCGGUcGAgGCGGUGAUUg -3'
miRNA:   3'- -CCUGC--CACG-GGUCA-CU-CGCCGCUGGa -5'
23504 5' -60.6 NC_005259.1 + 38975 0.67 0.465077
Target:  5'- cGAUGGcaucgcggauacccUGCCCAGccucguUGAgcGCGGUGACCa -3'
miRNA:   3'- cCUGCC--------------ACGGGUC------ACU--CGCCGCUGGa -5'
23504 5' -60.6 NC_005259.1 + 16408 0.67 0.458465
Target:  5'- gGGACgcagcccaccgaGGUGCCCGucGAGCGGCccaaACCg -3'
miRNA:   3'- -CCUG------------CCACGGGUcaCUCGCCGc---UGGa -5'
23504 5' -60.6 NC_005259.1 + 4298 0.67 0.458465
Target:  5'- cGGAcCGGcgGCCCuGcgaUGAGCG-CGACCa -3'
miRNA:   3'- -CCU-GCCa-CGGGuC---ACUCGCcGCUGGa -5'
23504 5' -60.6 NC_005259.1 + 19186 0.67 0.443544
Target:  5'- -aACGGUGCCCucgacagcgagcucGUGgugcgGGCGGCGACg- -3'
miRNA:   3'- ccUGCCACGGGu-------------CAC-----UCGCCGCUGga -5'
23504 5' -60.6 NC_005259.1 + 8962 0.67 0.438937
Target:  5'- uGGACGG-GCaCCgugccgggacguaGGUGccAGCGGCGACg- -3'
miRNA:   3'- -CCUGCCaCG-GG-------------UCAC--UCGCCGCUGga -5'
23504 5' -60.6 NC_005259.1 + 5636 0.68 0.41277
Target:  5'- cGGAUcGUGCCCGGcGAGgaCGGCGGgCg -3'
miRNA:   3'- -CCUGcCACGGGUCaCUC--GCCGCUgGa -5'
23504 5' -60.6 NC_005259.1 + 66926 0.68 0.41277
Target:  5'- -cGCGGUGCUCgaccggGGUGAGCGG-GACa- -3'
miRNA:   3'- ccUGCCACGGG------UCACUCGCCgCUGga -5'
23504 5' -60.6 NC_005259.1 + 29930 0.68 0.398753
Target:  5'- cGACGcGUggccgccacgcgGCCCGGUcgcggcugguggggcGGGCGGUGACCg -3'
miRNA:   3'- cCUGC-CA------------CGGGUCA---------------CUCGCCGCUGGa -5'
23504 5' -60.6 NC_005259.1 + 23238 0.68 0.38674
Target:  5'- cGACGccaaUGCCaccucGUGGGCGGUGGCCa -3'
miRNA:   3'- cCUGCc---ACGGgu---CACUCGCCGCUGGa -5'
23504 5' -60.6 NC_005259.1 + 31675 0.68 0.378306
Target:  5'- cGACGGgguUGCCCgAGgcauccucGGCGGUGACCa -3'
miRNA:   3'- cCUGCC---ACGGG-UCac------UCGCCGCUGGa -5'
23504 5' -60.6 NC_005259.1 + 38742 0.68 0.369997
Target:  5'- cGGCGGUgGCCCgccgcaggccGGUGAGCuGcGCGAUCa -3'
miRNA:   3'- cCUGCCA-CGGG----------UCACUCG-C-CGCUGGa -5'
23504 5' -60.6 NC_005259.1 + 31250 0.69 0.345042
Target:  5'- cGGCGGUGCCgccccacacgccgCAGUaGGCGGUGGCg- -3'
miRNA:   3'- cCUGCCACGG-------------GUCAcUCGCCGCUGga -5'
23504 5' -60.6 NC_005259.1 + 64448 0.69 0.322812
Target:  5'- gGGGCGcUGCCCuugGGGCGGCGAa-- -3'
miRNA:   3'- -CCUGCcACGGGucaCUCGCCGCUgga -5'
23504 5' -60.6 NC_005259.1 + 6406 0.7 0.287035
Target:  5'- aGGCGGUGCCC--UGAuGUGGCccGACCUc -3'
miRNA:   3'- cCUGCCACGGGucACU-CGCCG--CUGGA- -5'
23504 5' -60.6 NC_005259.1 + 14531 0.71 0.271655
Target:  5'- cGGugcguuuCGGUGCCgAGUucguccggcaggccGAGCGGgGACCg -3'
miRNA:   3'- -CCu------GCCACGGgUCA--------------CUCGCCgCUGGa -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.