miRNA display CGI


Results 1 - 17 of 17 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
8075 3' -59.1 NC_001978.2 + 18333 0.66 0.475905
Target:  5'- uGGgcgaagGCUCacccgaagGUCGUCaCGUCCGUCGUcGUc -3'
miRNA:   3'- -CCa-----CGAG--------CAGCAG-GCGGGCAGCGaCG- -5'
8075 3' -59.1 NC_001978.2 + 2857 0.67 0.440833
Target:  5'- gGGUGCacgaagacguugccuUCGUCGUCUuCCCagGUCGCgauaauugGCu -3'
miRNA:   3'- -CCACG---------------AGCAGCAGGcGGG--CAGCGa-------CG- -5'
8075 3' -59.1 NC_001978.2 + 2706 0.67 0.427594
Target:  5'- uGGUGCUCGcCGUUCa--CGgCGCUGUg -3'
miRNA:   3'- -CCACGAGCaGCAGGcggGCaGCGACG- -5'
8075 3' -59.1 NC_001978.2 + 12695 0.67 0.427594
Target:  5'- cGUGC-CGUCcUUCGCCUGUaCGUucUGCg -3'
miRNA:   3'- cCACGaGCAGcAGGCGGGCA-GCG--ACG- -5'
8075 3' -59.1 NC_001978.2 + 18817 0.67 0.418283
Target:  5'- gGGUGCgcgCGgCGUUC-CCCGcuaucgaCGCUGCg -3'
miRNA:   3'- -CCACGa--GCaGCAGGcGGGCa------GCGACG- -5'
8075 3' -59.1 NC_001978.2 + 37516 0.67 0.418283
Target:  5'- uGUGCgcgagCGUCGUCUGUcuUCGUCgGCguagGCg -3'
miRNA:   3'- cCACGa----GCAGCAGGCG--GGCAG-CGa---CG- -5'
8075 3' -59.1 NC_001978.2 + 32243 0.67 0.418283
Target:  5'- cGGUGCgcgCGUccgucgauaccCGUCCGCCCcgGUCgGCUu- -3'
miRNA:   3'- -CCACGa--GCA-----------GCAGGCGGG--CAG-CGAcg -5'
8075 3' -59.1 NC_001978.2 + 20894 0.67 0.418283
Target:  5'- -aUGCUCGcgUCGUCCuucaGUCCGUCGa-GCu -3'
miRNA:   3'- ccACGAGC--AGCAGG----CGGGCAGCgaCG- -5'
8075 3' -59.1 NC_001978.2 + 26319 0.67 0.400037
Target:  5'- uGUGCUCGcCGguugcCUGCCggaGUCGCgcgGCu -3'
miRNA:   3'- cCACGAGCaGCa----GGCGGg--CAGCGa--CG- -5'
8075 3' -59.1 NC_001978.2 + 28525 0.68 0.381435
Target:  5'- aGUGCUCccCGUCCGUCCGcugggucagcgucUCGCccaugGCa -3'
miRNA:   3'- cCACGAGcaGCAGGCGGGC-------------AGCGa----CG- -5'
8075 3' -59.1 NC_001978.2 + 22991 0.68 0.348452
Target:  5'- -uUGCgCGUUGUaCCGCCCGg-GUUGCc -3'
miRNA:   3'- ccACGaGCAGCA-GGCGGGCagCGACG- -5'
8075 3' -59.1 NC_001978.2 + 22744 0.69 0.324498
Target:  5'- cGUGUUCGUCG-CUGCC-GUCGUcggGCu -3'
miRNA:   3'- cCACGAGCAGCaGGCGGgCAGCGa--CG- -5'
8075 3' -59.1 NC_001978.2 + 24319 0.69 0.309221
Target:  5'- --aGC-CGUucUGUUCGCCCGUCacauuGCUGCg -3'
miRNA:   3'- ccaCGaGCA--GCAGGCGGGCAG-----CGACG- -5'
8075 3' -59.1 NC_001978.2 + 30975 0.69 0.301791
Target:  5'- --aGCUCaaGUCGUaCCGCCCGaaggCGCguaagGCg -3'
miRNA:   3'- ccaCGAG--CAGCA-GGCGGGCa---GCGa----CG- -5'
8075 3' -59.1 NC_001978.2 + 25507 0.7 0.280329
Target:  5'- cGUGUcgaCGUCGUUCGCCCGguuccCGC-GCa -3'
miRNA:   3'- cCACGa--GCAGCAGGCGGGCa----GCGaCG- -5'
8075 3' -59.1 NC_001978.2 + 18360 0.71 0.234994
Target:  5'- cGUGCguaGUUG-CCGCCCGgcUUGCUGUg -3'
miRNA:   3'- cCACGag-CAGCaGGCGGGC--AGCGACG- -5'
8075 3' -59.1 NC_001978.2 + 4685 0.96 0.003684
Target:  5'- gGGUcgUCGUCGUCCGCCCGUCGCUGCc -3'
miRNA:   3'- -CCAcgAGCAGCAGGCGGGCAGCGACG- -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.