miRNA display CGI


Results 1 - 20 of 29 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
2900 3' -58.9 NC_001493.1 + 1984 0.68 0.683331
Target:  5'- uGUGGCCGucaaGGaGUGGCUG-UCUACGGa -3'
miRNA:   3'- gCGCUGGC----CC-CACCGGCuAGAUGUCg -5'
2900 3' -58.9 NC_001493.1 + 3356 0.69 0.593362
Target:  5'- aGCG-CCGGGGUGGUgaucgaCGAUgUACAc- -3'
miRNA:   3'- gCGCuGGCCCCACCG------GCUAgAUGUcg -5'
2900 3' -58.9 NC_001493.1 + 5296 0.66 0.760681
Target:  5'- gGUGACCGGGG-GGCUG----GCGGg -3'
miRNA:   3'- gCGCUGGCCCCaCCGGCuagaUGUCg -5'
2900 3' -58.9 NC_001493.1 + 5344 0.66 0.769949
Target:  5'- cCGUGACCGGaaacucucccuGGUcaCCGGUCcGCGGCu -3'
miRNA:   3'- -GCGCUGGCC-----------CCAccGGCUAGaUGUCG- -5'
2900 3' -58.9 NC_001493.1 + 12838 0.66 0.805759
Target:  5'- uCGCGuCCGGGGUcgGGgCGcUCgggauacucGCGGCg -3'
miRNA:   3'- -GCGCuGGCCCCA--CCgGCuAGa--------UGUCG- -5'
2900 3' -58.9 NC_001493.1 + 18811 0.66 0.797012
Target:  5'- uGCGAgCGGGGggugagacucgGGUCGcUCgacGCGGCc -3'
miRNA:   3'- gCGCUgGCCCCa----------CCGGCuAGa--UGUCG- -5'
2900 3' -58.9 NC_001493.1 + 27791 0.66 0.797012
Target:  5'- -cCGGCCGGuGGUaucggGGCCGAUCccgAGCc -3'
miRNA:   3'- gcGCUGGCC-CCA-----CCGGCUAGaugUCG- -5'
2900 3' -58.9 NC_001493.1 + 28366 1.12 0.001017
Target:  5'- uCGCGACCGGGGUGGCCGAUCUACAGCg -3'
miRNA:   3'- -GCGCUGGCCCCACCGGCUAGAUGUCG- -5'
2900 3' -58.9 NC_001493.1 + 30937 0.71 0.496022
Target:  5'- uGCGGCCGcGGUgacGGCgCGGUCgGCGGCc -3'
miRNA:   3'- gCGCUGGCcCCA---CCG-GCUAGaUGUCG- -5'
2900 3' -58.9 NC_001493.1 + 32595 0.69 0.603345
Target:  5'- uCGCGACCGGGacgGGC--GUUUACGGUc -3'
miRNA:   3'- -GCGCUGGCCCca-CCGgcUAGAUGUCG- -5'
2900 3' -58.9 NC_001493.1 + 32790 0.66 0.797012
Target:  5'- cCGCGACCGGGaucGGCaCGcgCggaUAUGGCc -3'
miRNA:   3'- -GCGCUGGCCCca-CCG-GCuaG---AUGUCG- -5'
2900 3' -58.9 NC_001493.1 + 42789 0.67 0.716774
Target:  5'- aGCGAUCGGGGUuaucggcgcuccuauGGCCc-UUUugAGCc -3'
miRNA:   3'- gCGCUGGCCCCA---------------CCGGcuAGAugUCG- -5'
2900 3' -58.9 NC_001493.1 + 43448 0.74 0.357959
Target:  5'- uGUGGaucuCCGGGG-GGUCGAUCUgcGCGGCc -3'
miRNA:   3'- gCGCU----GGCCCCaCCGGCUAGA--UGUCG- -5'
2900 3' -58.9 NC_001493.1 + 47233 0.66 0.805759
Target:  5'- aGCGG-CGGGGUGGCacCGGUCa--GGUc -3'
miRNA:   3'- gCGCUgGCCCCACCG--GCUAGaugUCG- -5'
2900 3' -58.9 NC_001493.1 + 48172 0.69 0.603345
Target:  5'- uCGUGGCCGGGuugggGGCCGGguUCgACAGg -3'
miRNA:   3'- -GCGCUGGCCCca---CCGGCU--AGaUGUCg -5'
2900 3' -58.9 NC_001493.1 + 48624 0.76 0.267241
Target:  5'- gGCGAUCGuGGGUGGCaCGGUCUugGuGUu -3'
miRNA:   3'- gCGCUGGC-CCCACCG-GCUAGAugU-CG- -5'
2900 3' -58.9 NC_001493.1 + 50689 0.67 0.731294
Target:  5'- uCGCGGCCGuGGGUGGaCCuuUCUuuuuuguggugguGguGCu -3'
miRNA:   3'- -GCGCUGGC-CCCACC-GGcuAGA-------------UguCG- -5'
2900 3' -58.9 NC_001493.1 + 62996 0.66 0.788123
Target:  5'- aGCGACCGGcaccGUGaCCG-UCgcgACGGCg -3'
miRNA:   3'- gCGCUGGCCc---CACcGGCuAGa--UGUCG- -5'
2900 3' -58.9 NC_001493.1 + 64944 0.7 0.563605
Target:  5'- gCGCGAuaaCCGGGGUGcGCCgcguGAUCguccagAgGGCg -3'
miRNA:   3'- -GCGCU---GGCCCCAC-CGG----CUAGa-----UgUCG- -5'
2900 3' -58.9 NC_001493.1 + 78408 0.71 0.496022
Target:  5'- aCGCauuGugCGGGGUGuGCCGAUUUuuGGUu -3'
miRNA:   3'- -GCG---CugGCCCCAC-CGGCUAGAugUCG- -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.