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
27479 3' -58.6 NC_005869.1 + 1476 0.66 0.404347
Target:  5'- -aGCCGCUcGcUGCuucaAGCucaagauucaGCCACCUCUCu -3'
miRNA:   3'- ggCGGCGAaC-ACG----UCG----------UGGUGGAGGG- -5'
27479 3' -58.6 NC_005869.1 + 8131 0.69 0.280612
Target:  5'- gCgGCCGCa-GUGCucGCACUucuggGCCUCCUg -3'
miRNA:   3'- -GgCGGCGaaCACGu-CGUGG-----UGGAGGG- -5'
27479 3' -58.6 NC_005869.1 + 10453 0.69 0.259121
Target:  5'- aCGCUGCUgccGgacgGCAGCACCcuggaguGCUUCCg -3'
miRNA:   3'- gGCGGCGAa--Ca---CGUCGUGG-------UGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 11010 0.68 0.28784
Target:  5'- aUGCCGCUggUGUGCgacugcggcuggGGCuGCCGCCaggugCCCc -3'
miRNA:   3'- gGCGGCGA--ACACG------------UCG-UGGUGGa----GGG- -5'
27479 3' -58.6 NC_005869.1 + 11294 0.71 0.204851
Target:  5'- -gGCCGCccUGaUGCAGaCGCgGCCUCCa -3'
miRNA:   3'- ggCGGCGa-AC-ACGUC-GUGgUGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 11734 0.7 0.221951
Target:  5'- gCgGCgGCggggGUG-AGCGCgGCCUCCCu -3'
miRNA:   3'- -GgCGgCGaa--CACgUCGUGgUGGAGGG- -5'
27479 3' -58.6 NC_005869.1 + 12549 0.66 0.391432
Target:  5'- gCCGCUGCUguugaacugguugGUGguGgG-CACCUCCa -3'
miRNA:   3'- -GGCGGCGAa------------CACguCgUgGUGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 13119 0.68 0.28784
Target:  5'- gUGUCGUUgc-GCAGCAUgGCCUCCa -3'
miRNA:   3'- gGCGGCGAacaCGUCGUGgUGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 13323 0.71 0.183837
Target:  5'- gCCGCCGCc---GCcGCGCCucccgcuCCUCCCu -3'
miRNA:   3'- -GGCGGCGaacaCGuCGUGGu------GGAGGG- -5'
27479 3' -58.6 NC_005869.1 + 13440 0.67 0.368173
Target:  5'- cCCGCCGCcaccaGCcGCGCC-CCggggCCCu -3'
miRNA:   3'- -GGCGGCGaaca-CGuCGUGGuGGa---GGG- -5'
27479 3' -58.6 NC_005869.1 + 13671 0.71 0.204851
Target:  5'- gCCGCCGCag--GgAGCGUCGCCUCCg -3'
miRNA:   3'- -GGCGGCGaacaCgUCGUGGUGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 15139 0.67 0.377006
Target:  5'- aCGgCGCUugcaUGUGCGGaCACC-CagUCCCa -3'
miRNA:   3'- gGCgGCGA----ACACGUC-GUGGuGg-AGGG- -5'
27479 3' -58.6 NC_005869.1 + 15485 0.7 0.234014
Target:  5'- gCCGCCGCgc--GCGGCGCCGuuCUUCgCg -3'
miRNA:   3'- -GGCGGCGaacaCGUCGUGGU--GGAGgG- -5'
27479 3' -58.6 NC_005869.1 + 15610 0.66 0.423256
Target:  5'- gCGCCGgccaucCUggggGUgcgccGCAGcCGCCGCCUCCg -3'
miRNA:   3'- gGCGGC------GAa---CA-----CGUC-GUGGUGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 15996 0.69 0.246624
Target:  5'- gCGCCGCUggacgGgGCGGCGcgugcgcgcCCACCUaccgCCCg -3'
miRNA:   3'- gGCGGCGAa----CaCGUCGU---------GGUGGA----GGG- -5'
27479 3' -58.6 NC_005869.1 + 16208 0.72 0.17889
Target:  5'- gCCGCCGCUgc-GCcgaGGCGCCACgCggaaCCCa -3'
miRNA:   3'- -GGCGGCGAacaCG---UCGUGGUG-Ga---GGG- -5'
27479 3' -58.6 NC_005869.1 + 16475 0.77 0.076561
Target:  5'- aCCGCCGCUgcgGgcggGCGGCGCUGCCaCCg -3'
miRNA:   3'- -GGCGGCGAa--Ca---CGUCGUGGUGGaGGg -5'
27479 3' -58.6 NC_005869.1 + 16599 0.69 0.266589
Target:  5'- aCCGCCGCggGcGCcGgGCCACCggaaCCa -3'
miRNA:   3'- -GGCGGCGaaCaCGuCgUGGUGGag--GG- -5'
27479 3' -58.6 NC_005869.1 + 16669 0.69 0.259792
Target:  5'- gCCGCgGCgcUGgagcggGCGGCgGCCGCCgugCCCc -3'
miRNA:   3'- -GGCGgCGa-ACa-----CGUCG-UGGUGGa--GGG- -5'
27479 3' -58.6 NC_005869.1 + 16750 0.76 0.085957
Target:  5'- gUCGCCGCgcccgagGUGCuGC-CCAgCCUCCCc -3'
miRNA:   3'- -GGCGGCGaa-----CACGuCGuGGU-GGAGGG- -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.