miRNA display CGI


Results 1 - 20 of 24 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
24136 3' -56.1 NC_005263.2 + 39384 0.66 0.64666
Target:  5'- gCUCGCCGAGuacgCGAuGGa-CGCGGCc -3'
miRNA:   3'- gGAGCGGUUCua--GUU-CCacGCGCCGa -5'
24136 3' -56.1 NC_005263.2 + 37557 0.66 0.645554
Target:  5'- gCCaCGUgAAGAUCAGucguuccGGUGCGCuGCUc -3'
miRNA:   3'- -GGaGCGgUUCUAGUU-------CCACGCGcCGA- -5'
24136 3' -56.1 NC_005263.2 + 8359 0.66 0.635596
Target:  5'- gCUUGCCGAGGUCGcuugucgucAGuG-GCGCaGGCa -3'
miRNA:   3'- gGAGCGGUUCUAGU---------UC-CaCGCG-CCGa -5'
24136 3' -56.1 NC_005263.2 + 32569 0.66 0.624529
Target:  5'- aCUCGCCGAGGUUcAGGacaacgaGCGCGaugaGCa -3'
miRNA:   3'- gGAGCGGUUCUAGuUCCa------CGCGC----CGa -5'
24136 3' -56.1 NC_005263.2 + 44098 0.66 0.613469
Target:  5'- gCCUgaGCUGcAGAUCGgucAGGUGCGCuGCUc -3'
miRNA:   3'- -GGAg-CGGU-UCUAGU---UCCACGCGcCGA- -5'
24136 3' -56.1 NC_005263.2 + 22713 0.66 0.602425
Target:  5'- --cUGCCA-GGUCGAGGccuCGCGGCg -3'
miRNA:   3'- ggaGCGGUuCUAGUUCCac-GCGCCGa -5'
24136 3' -56.1 NC_005263.2 + 18427 0.67 0.541302
Target:  5'- gCUUCGUCGGcGAugaaccgcUCGAGGUgcgcgugaagcagccGCGCGGCUg -3'
miRNA:   3'- -GGAGCGGUU-CU--------AGUUCCA---------------CGCGCCGA- -5'
24136 3' -56.1 NC_005263.2 + 14247 0.67 0.537005
Target:  5'- aUCUCGUgu-GAUCAuagcagcgauggGGGUGCGCaGGCa -3'
miRNA:   3'- -GGAGCGguuCUAGU------------UCCACGCG-CCGa -5'
24136 3' -56.1 NC_005263.2 + 43846 0.68 0.505192
Target:  5'- -gUCGaCCGGGcgCAAcaacGUGCGCGGCa -3'
miRNA:   3'- ggAGC-GGUUCuaGUUc---CACGCGCCGa -5'
24136 3' -56.1 NC_005263.2 + 47394 0.68 0.484439
Target:  5'- aCCUCGCCAcGGcgcUCGcGG-GCGgCGGCa -3'
miRNA:   3'- -GGAGCGGUuCU---AGUuCCaCGC-GCCGa -5'
24136 3' -56.1 NC_005263.2 + 42905 0.69 0.464103
Target:  5'- gCUCGCCuGGAcgCGA-GUGCGCGaGCa -3'
miRNA:   3'- gGAGCGGuUCUa-GUUcCACGCGC-CGa -5'
24136 3' -56.1 NC_005263.2 + 28941 0.69 0.441281
Target:  5'- uCCUCGCCAcggcccaugcggucGGAUC--GGUGuCGCGGa- -3'
miRNA:   3'- -GGAGCGGU--------------UCUAGuuCCAC-GCGCCga -5'
24136 3' -56.1 NC_005263.2 + 9398 0.69 0.434462
Target:  5'- uCCUUGUCu-GGUUAAGGUauCGCGGCUg -3'
miRNA:   3'- -GGAGCGGuuCUAGUUCCAc-GCGCCGA- -5'
24136 3' -56.1 NC_005263.2 + 47811 0.69 0.424828
Target:  5'- --gCGCUuGGGgcuUCAuuaucGGGUGCGCGGCUa -3'
miRNA:   3'- ggaGCGGuUCU---AGU-----UCCACGCGCCGA- -5'
24136 3' -56.1 NC_005263.2 + 2652 0.7 0.415322
Target:  5'- uUCgCGCCGGGcUCGAGGUGCagGCGuGCg -3'
miRNA:   3'- -GGaGCGGUUCuAGUUCCACG--CGC-CGa -5'
24136 3' -56.1 NC_005263.2 + 27326 0.7 0.396708
Target:  5'- cCCgacgCGCCGAcGAUCAGcG-GCGCGGCc -3'
miRNA:   3'- -GGa---GCGGUU-CUAGUUcCaCGCGCCGa -5'
24136 3' -56.1 NC_005263.2 + 44984 0.7 0.369815
Target:  5'- aCCUguCCGGGAUCGAGGcGCGCauGGCg -3'
miRNA:   3'- -GGAgcGGUUCUAGUUCCaCGCG--CCGa -5'
24136 3' -56.1 NC_005263.2 + 29735 0.71 0.352592
Target:  5'- aCUUCGCCuuGAUCGucugcAGGUGCGCcgGGUUc -3'
miRNA:   3'- -GGAGCGGuuCUAGU-----UCCACGCG--CCGA- -5'
24136 3' -56.1 NC_005263.2 + 39877 0.71 0.352592
Target:  5'- aCCaCGCCGuGGUCGGGGUcGC-CGGCUg -3'
miRNA:   3'- -GGaGCGGUuCUAGUUCCA-CGcGCCGA- -5'
24136 3' -56.1 NC_005263.2 + 419 0.71 0.327839
Target:  5'- uCCUUGaUCAAGA-CAGGcUGCGCGGCa -3'
miRNA:   3'- -GGAGC-GGUUCUaGUUCcACGCGCCGa -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.