miRNA display CGI


Results 1 - 20 of 67 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
11434 3' -59.6 NC_003085.1 + 873 0.67 0.392114
Target:  5'- uCGCGCCuuccCGGCgGUGGCGUCcgaggggcAUCC-Cg -3'
miRNA:   3'- -GCGUGGuc--GCCG-CACCGCAG--------UAGGuG- -5'
11434 3' -59.6 NC_003085.1 + 2014 0.67 0.374587
Target:  5'- aGCGgauGCGGCGUGGCG-CGauguguUCCACc -3'
miRNA:   3'- gCGUgguCGCCGCACCGCaGU------AGGUG- -5'
11434 3' -59.6 NC_003085.1 + 6079 0.69 0.27404
Target:  5'- uGCACCAGCGGCcccagGGaGUCcUCCGu -3'
miRNA:   3'- gCGUGGUCGCCGca---CCgCAGuAGGUg -5'
11434 3' -59.6 NC_003085.1 + 6764 0.67 0.401075
Target:  5'- cCGCGCC-GUGGCGgacGGCGagAgcccuUCCGCu -3'
miRNA:   3'- -GCGUGGuCGCCGCa--CCGCagU-----AGGUG- -5'
11434 3' -59.6 NC_003085.1 + 8206 0.66 0.447772
Target:  5'- cCGCcaguCCAGCcugccgcGCGUGGCGUUGUagaggCCGCa -3'
miRNA:   3'- -GCGu---GGUCGc------CGCACCGCAGUA-----GGUG- -5'
11434 3' -59.6 NC_003085.1 + 8516 0.68 0.333144
Target:  5'- gCGCACCAGCgGGCGcaGGCGaaggCGgugacgCCAUg -3'
miRNA:   3'- -GCGUGGUCG-CCGCa-CCGCa---GUa-----GGUG- -5'
11434 3' -59.6 NC_003085.1 + 9078 0.67 0.392114
Target:  5'- uGCcgGCCAGCGccaGaGGCGUCAgcgCCGCg -3'
miRNA:   3'- gCG--UGGUCGCcg-CaCCGCAGUa--GGUG- -5'
11434 3' -59.6 NC_003085.1 + 10312 0.66 0.438189
Target:  5'- aCGaCGCCguAGCccuuuGCcagGGCGUCAUCCACu -3'
miRNA:   3'- -GC-GUGG--UCGc----CGca-CCGCAGUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 11303 0.67 0.410166
Target:  5'- uGCGCC-GCGGCGggGaGCGcCA-CCACc -3'
miRNA:   3'- gCGUGGuCGCCGCa-C-CGCaGUaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 11457 0.68 0.357598
Target:  5'- gGgGCCGacGCGGUGUGaGCGUCccaCCACc -3'
miRNA:   3'- gCgUGGU--CGCCGCAC-CGCAGua-GGUG- -5'
11434 3' -59.6 NC_003085.1 + 11571 0.69 0.287985
Target:  5'- aGCGCCGuCGGCGUGGUGc---CCACc -3'
miRNA:   3'- gCGUGGUcGCCGCACCGCaguaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 14470 0.66 0.467278
Target:  5'- aGCcucgGCCAGCaGCGUGcGCacgagGUCAUCgGCu -3'
miRNA:   3'- gCG----UGGUCGcCGCAC-CG-----CAGUAGgUG- -5'
11434 3' -59.6 NC_003085.1 + 14916 0.7 0.235451
Target:  5'- gCGCACCGGCcgccagcGCGUGGCG-C-UCCAa -3'
miRNA:   3'- -GCGUGGUCGc------CGCACCGCaGuAGGUg -5'
11434 3' -59.6 NC_003085.1 + 15626 0.72 0.181338
Target:  5'- uGgGCCGGUGGcCG-GGCGgagagCGUCCACa -3'
miRNA:   3'- gCgUGGUCGCC-GCaCCGCa----GUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 17478 0.66 0.428726
Target:  5'- aGCGCCAGCcccaGGCGUaacgggGGCaGUCG-CCAg -3'
miRNA:   3'- gCGUGGUCG----CCGCA------CCG-CAGUaGGUg -5'
11434 3' -59.6 NC_003085.1 + 19338 0.7 0.260641
Target:  5'- gGgGCCGGCGGCGgaUGGCGUCcgUg-- -3'
miRNA:   3'- gCgUGGUCGCCGC--ACCGCAGuaGgug -5'
11434 3' -59.6 NC_003085.1 + 19804 0.87 0.013687
Target:  5'- aCGCACCGGCGGCGUGGacauCGUCGaCCACu -3'
miRNA:   3'- -GCGUGGUCGCCGCACC----GCAGUaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 20852 0.66 0.419383
Target:  5'- cCGCAgCAGCGaGCGccacaccaccGGCGU-GUCCACc -3'
miRNA:   3'- -GCGUgGUCGC-CGCa---------CCGCAgUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 21105 0.68 0.356763
Target:  5'- cCGCGCCacGGCGGUGccgcggaUGGCGauagccaaAUCCACu -3'
miRNA:   3'- -GCGUGG--UCGCCGC-------ACCGCag------UAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 21358 0.71 0.206869
Target:  5'- gCGCGCCAuCcGCGUGGUGggCGUCUACg -3'
miRNA:   3'- -GCGUGGUcGcCGCACCGCa-GUAGGUG- -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.