miRNA display CGI


Results 1 - 19 of 19 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
16134 3' -59.4 NC_004065.1 + 222087 0.66 0.893198
Target:  5'- aCGGGUUucgugguacuaCGUUCUuuCGUCGUagGUUCCUCa -3'
miRNA:   3'- -GCCCAA-----------GCGAGG--GCAGCAg-CAGGGAG- -5'
16134 3' -59.4 NC_004065.1 + 45130 0.66 0.886861
Target:  5'- cCGGGcgccCGCUCCCGauccucucUCGUucccggCGUCCCg- -3'
miRNA:   3'- -GCCCaa--GCGAGGGC--------AGCA------GCAGGGag -5'
16134 3' -59.4 NC_004065.1 + 40354 0.66 0.879662
Target:  5'- uCGGGcguccgaUUCcCUCCCGacUCGUCGUCauguCCUCc -3'
miRNA:   3'- -GCCC-------AAGcGAGGGC--AGCAGCAG----GGAG- -5'
16134 3' -59.4 NC_004065.1 + 29199 0.66 0.873597
Target:  5'- cCGGG-UCGUcCCCGUCGcccCGUCCg-- -3'
miRNA:   3'- -GCCCaAGCGaGGGCAGCa--GCAGGgag -5'
16134 3' -59.4 NC_004065.1 + 98858 0.66 0.873597
Target:  5'- uGGGUgCGCUgCCGgaacgggggUCGUCGUCgCC-Ca -3'
miRNA:   3'- gCCCAaGCGAgGGC---------AGCAGCAG-GGaG- -5'
16134 3' -59.4 NC_004065.1 + 6470 0.67 0.852286
Target:  5'- aGGGUcUCGCUCgCGUUGUCGcgaaCCg- -3'
miRNA:   3'- gCCCA-AGCGAGgGCAGCAGCag--GGag -5'
16134 3' -59.4 NC_004065.1 + 157011 0.67 0.844824
Target:  5'- aGGGcgucUCGCUCgUGgcggcaUCGUCG-CCCUCg -3'
miRNA:   3'- gCCCa---AGCGAGgGC------AGCAGCaGGGAG- -5'
16134 3' -59.4 NC_004065.1 + 131775 0.67 0.844824
Target:  5'- aGGGc-CGCcgUCCCGagccgUCGUCGgcaCCCUCg -3'
miRNA:   3'- gCCCaaGCG--AGGGC-----AGCAGCa--GGGAG- -5'
16134 3' -59.4 NC_004065.1 + 98540 0.67 0.821442
Target:  5'- uCGGGagaCGCcgCCCGUCGcggcaUCGUCCUcgUCg -3'
miRNA:   3'- -GCCCaa-GCGa-GGGCAGC-----AGCAGGG--AG- -5'
16134 3' -59.4 NC_004065.1 + 122240 0.68 0.813336
Target:  5'- gCGGG-UCGUUCCUGUCGcCGcugcugCCCg- -3'
miRNA:   3'- -GCCCaAGCGAGGGCAGCaGCa-----GGGag -5'
16134 3' -59.4 NC_004065.1 + 137911 0.68 0.813336
Target:  5'- uCGGGc-UGCUCUCGUUGUaGUCCCg- -3'
miRNA:   3'- -GCCCaaGCGAGGGCAGCAgCAGGGag -5'
16134 3' -59.4 NC_004065.1 + 15597 0.69 0.743874
Target:  5'- aGGGUUCGCUCggaaccaucauCCGUCaagGUCaCCUCg -3'
miRNA:   3'- gCCCAAGCGAG-----------GGCAGcagCAG-GGAG- -5'
16134 3' -59.4 NC_004065.1 + 176123 0.7 0.659342
Target:  5'- aCGGG--CGCUCCuCG-CGUCGUCuCCUUc -3'
miRNA:   3'- -GCCCaaGCGAGG-GCaGCAGCAG-GGAG- -5'
16134 3' -59.4 NC_004065.1 + 766 0.7 0.659342
Target:  5'- gCGGGUUCGCgCUCGaccuUCGagCGUUCCUCc -3'
miRNA:   3'- -GCCCAAGCGaGGGC----AGCa-GCAGGGAG- -5'
16134 3' -59.4 NC_004065.1 + 42768 0.71 0.649756
Target:  5'- ---uUUCGCuucucuccUCUCGUCGUCGUCCCUUc -3'
miRNA:   3'- gcccAAGCG--------AGGGCAGCAGCAGGGAG- -5'
16134 3' -59.4 NC_004065.1 + 88583 0.71 0.649756
Target:  5'- uCGGGgaugUCGCcCUCGUCG-CGgCCCUCc -3'
miRNA:   3'- -GCCCa---AGCGaGGGCAGCaGCaGGGAG- -5'
16134 3' -59.4 NC_004065.1 + 39668 0.74 0.437586
Target:  5'- uGGG-UCGUgaaaggCCCGUCGUCGaaUCCCUUc -3'
miRNA:   3'- gCCCaAGCGa-----GGGCAGCAGC--AGGGAG- -5'
16134 3' -59.4 NC_004065.1 + 189871 0.76 0.373146
Target:  5'- gGGGUUUGCUgCCGUCGgcagCGUCUCa- -3'
miRNA:   3'- gCCCAAGCGAgGGCAGCa---GCAGGGag -5'
16134 3' -59.4 NC_004065.1 + 140041 1.08 0.003185
Target:  5'- uCGGGUUCGCUCCCGUCGUCGUCCCUCc -3'
miRNA:   3'- -GCCCAAGCGAGGGCAGCAGCAGGGAG- -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.