miRNA display CGI


Results 1 - 16 of 16 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
1522 3' -54.2 NC_001335.1 + 18556 0.66 0.771434
Target:  5'- gCUCCu-GGCUgucGCGagacuCCGAGUGgCGCa -3'
miRNA:   3'- gGAGGuuCCGAa--CGU-----GGCUCAUgGUG- -5'
1522 3' -54.2 NC_001335.1 + 47148 0.66 0.761119
Target:  5'- cUCUCCAAcgcGGCgcagccGCACCGua-ACCGCa -3'
miRNA:   3'- -GGAGGUU---CCGaa----CGUGGCucaUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 26191 0.66 0.750669
Target:  5'- aCUUC--GGCgUGCuCCGAGUGCUGCu -3'
miRNA:   3'- gGAGGuuCCGaACGuGGCUCAUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 42766 0.66 0.740094
Target:  5'- uUCUgCGAGGCguacaGCuCCuGGUGCCACu -3'
miRNA:   3'- -GGAgGUUCCGaa---CGuGGcUCAUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 34630 0.66 0.740094
Target:  5'- gCCUUCGAGGUagUGguUCGAGUAguUCGCc -3'
miRNA:   3'- -GGAGGUUCCGa-ACguGGCUCAU--GGUG- -5'
1522 3' -54.2 NC_001335.1 + 30828 0.68 0.652458
Target:  5'- uUCUCUcGGGCUuccUGCAUCGc-UACCGCg -3'
miRNA:   3'- -GGAGGuUCCGA---ACGUGGCucAUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 1378 0.68 0.651342
Target:  5'- uUCUCCAGcucGGUgggggGCACCGGGguguuggggcugcUGCCACc -3'
miRNA:   3'- -GGAGGUU---CCGaa---CGUGGCUC-------------AUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 47713 0.68 0.630129
Target:  5'- gCCgagaCCGAGGCUcgGCuCCaGAGggACCACa -3'
miRNA:   3'- -GGa---GGUUCCGAa-CGuGG-CUCa-UGGUG- -5'
1522 3' -54.2 NC_001335.1 + 30227 0.68 0.618963
Target:  5'- gCUCCAccggcaccacccAGGCUUcGUcCUGAGUACCGa -3'
miRNA:   3'- gGAGGU------------UCCGAA-CGuGGCUCAUGGUg -5'
1522 3' -54.2 NC_001335.1 + 49541 0.7 0.520092
Target:  5'- cCUUCCGcgAGGCUgccCACCGAGccaucaACCACg -3'
miRNA:   3'- -GGAGGU--UCCGAac-GUGGCUCa-----UGGUG- -5'
1522 3' -54.2 NC_001335.1 + 28678 0.71 0.467811
Target:  5'- aCgcgCCAAGGagauggaGCGCCGAGUgcGCCACc -3'
miRNA:   3'- gGa--GGUUCCgaa----CGUGGCUCA--UGGUG- -5'
1522 3' -54.2 NC_001335.1 + 15542 0.71 0.437769
Target:  5'- --aCCGGGGC-UGgACCGAGgACCGCu -3'
miRNA:   3'- ggaGGUUCCGaACgUGGCUCaUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 45105 0.75 0.282788
Target:  5'- aCCUgucaCAAGGUUUGCuACCGAGUggggcagGCCGCu -3'
miRNA:   3'- -GGAg---GUUCCGAACG-UGGCUCA-------UGGUG- -5'
1522 3' -54.2 NC_001335.1 + 48850 0.75 0.2693
Target:  5'- aCCU-CGAGGCUUGCGCCGcccGCUACg -3'
miRNA:   3'- -GGAgGUUCCGAACGUGGCucaUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 42369 0.81 0.105434
Target:  5'- gCgUCCAAGGCUcgcUGCaucugguucaucaGCCGGGUGCCGCg -3'
miRNA:   3'- -GgAGGUUCCGA---ACG-------------UGGCUCAUGGUG- -5'
1522 3' -54.2 NC_001335.1 + 48375 1.12 0.00066
Target:  5'- cCCUCCAAGGCUUGCACCGAGUACCACg -3'
miRNA:   3'- -GGAGGUUCCGAACGUGGCUCAUGGUG- -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.