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 + 22126 0.66 0.432907
Target:  5'- uUCGUgCGCggagGCAcCACCGCCUCCa -3'
miRNA:   3'- -GGCG-GCGaacaCGUcGUGGUGGAGGg -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 + 21753 0.69 0.253138
Target:  5'- gCGCCGCcugcaggaaggUGUGCGGCcCCgagcggaacACCUCCg -3'
miRNA:   3'- gGCGGCGa----------ACACGUCGuGG---------UGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 27380 0.8 0.041362
Target:  5'- cCCGCCGCUg--GCAGgACCGCCUCg- -3'
miRNA:   3'- -GGCGGCGAacaCGUCgUGGUGGAGgg -5'
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 + 25722 0.66 0.395095
Target:  5'- aCCGCgGUggagcUG-GCccGCGCCGCCgggCCCa -3'
miRNA:   3'- -GGCGgCGa----ACaCGu-CGUGGUGGa--GGG- -5'
27479 3' -58.6 NC_005869.1 + 26000 0.67 0.377006
Target:  5'- aCgGCCGaCUgGUgGCAGacCAUCGCCUUCCg -3'
miRNA:   3'- -GgCGGC-GAaCA-CGUC--GUGGUGGAGGG- -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 + 21393 0.67 0.359483
Target:  5'- aCGCCGCcg--GCAGcCGCCGCUgCCg -3'
miRNA:   3'- gGCGGCGaacaCGUC-GUGGUGGaGGg -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 + 17468 0.68 0.298205
Target:  5'- aCCGCCGCggggcuaggggcggcGUgggugcuggagcggGCGGCuccaccACCACCUCCUg -3'
miRNA:   3'- -GGCGGCGaa-------------CA--------------CGUCG------UGGUGGAGGG- -5'
27479 3' -58.6 NC_005869.1 + 30406 0.67 0.368173
Target:  5'- uCCGCCaGCgccUGCcGCAucaugcCCACCUCCg -3'
miRNA:   3'- -GGCGG-CGaacACGuCGU------GGUGGAGGg -5'
27479 3' -58.6 NC_005869.1 + 30280 0.66 0.431936
Target:  5'- gCGCCG-------GGCGCCACCUCCUc -3'
miRNA:   3'- gGCGGCgaacacgUCGUGGUGGAGGG- -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 + 23742 0.66 0.423256
Target:  5'- uCCGCCGU-----CGGCAUCGCCuggaugUCCCg -3'
miRNA:   3'- -GGCGGCGaacacGUCGUGGUGG------AGGG- -5'
27479 3' -58.6 NC_005869.1 + 17384 0.67 0.376116
Target:  5'- gCGCCGCggccgcgcUGagcUGCGGCGCCacgacggccugggGCCggCCCg -3'
miRNA:   3'- gGCGGCGa-------AC---ACGUCGUGG-------------UGGa-GGG- -5'
27479 3' -58.6 NC_005869.1 + 26538 0.68 0.28784
Target:  5'- aCCGCCGCga--GguGCcCC-CCUCCUu -3'
miRNA:   3'- -GGCGGCGaacaCguCGuGGuGGAGGG- -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 + 25814 0.66 0.404347
Target:  5'- cCCGCC-CgagGgcccGCcGCcCCGCCUCCCc -3'
miRNA:   3'- -GGCGGcGaa-Ca---CGuCGuGGUGGAGGG- -5'
27479 3' -58.6 NC_005869.1 + 12549 0.66 0.391432
Target:  5'- gCCGCUGCUguugaacugguugGUGguGgG-CACCUCCa -3'
miRNA:   3'- -GGCGGCGAa------------CACguCgUgGUGGAGGg -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.