miRNA display CGI


Results 1 - 20 of 22 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
23252 3' -49.5 NC_005259.1 + 68300 0.66 0.986877
Target:  5'- -aUCGggaucGGGCGCGUcCGgcGACGgGAu -3'
miRNA:   3'- ggAGCa----UCUGCGCAuGCauUUGCgCU- -5'
23252 3' -49.5 NC_005259.1 + 57849 0.66 0.986877
Target:  5'- aCCUCGUGGAaccacgacggUGCGacacccucgAUGUGGcgguGCGCGAc -3'
miRNA:   3'- -GGAGCAUCU----------GCGCa--------UGCAUU----UGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 40814 0.66 0.985081
Target:  5'- cCCUCGgggucGACGCGcACGaUGGGcCGCGu -3'
miRNA:   3'- -GGAGCau---CUGCGCaUGC-AUUU-GCGCu -5'
23252 3' -49.5 NC_005259.1 + 21063 0.66 0.980932
Target:  5'- gCCaUCGUguGGACGCGUAUGccgcugucGACGCu- -3'
miRNA:   3'- -GG-AGCA--UCUGCGCAUGCau------UUGCGcu -5'
23252 3' -49.5 NC_005259.1 + 42144 0.66 0.97856
Target:  5'- aCgUCGcgccCGCGUugGUGcACGCGAc -3'
miRNA:   3'- -GgAGCaucuGCGCAugCAUuUGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 21899 0.66 0.97856
Target:  5'- gCCUCG-GGAauUGCGccCGUAccAGCGCGAg -3'
miRNA:   3'- -GGAGCaUCU--GCGCauGCAU--UUGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 20281 0.67 0.973172
Target:  5'- -aUCGUGGACGCGcUAC-----CGCGAg -3'
miRNA:   3'- ggAGCAUCUGCGC-AUGcauuuGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 53008 0.67 0.973172
Target:  5'- gCCUCGacUGGGCGC-UGCGguGGCGuCGAg -3'
miRNA:   3'- -GGAGC--AUCUGCGcAUGCauUUGC-GCU- -5'
23252 3' -49.5 NC_005259.1 + 66018 0.67 0.970138
Target:  5'- cCCUCG-GGGC-CGcACGUGuugcGCGCGAg -3'
miRNA:   3'- -GGAGCaUCUGcGCaUGCAUu---UGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 26350 0.67 0.970138
Target:  5'- cCCUCGggccgAGcuGCGCGUagAUGUcGGugGCGAg -3'
miRNA:   3'- -GGAGCa----UC--UGCGCA--UGCA-UUugCGCU- -5'
23252 3' -49.5 NC_005259.1 + 51663 0.67 0.963349
Target:  5'- gCCgCGcGGGCGCGUcgggcACGggcGCGCGAu -3'
miRNA:   3'- -GGaGCaUCUGCGCA-----UGCauuUGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 67330 0.68 0.955551
Target:  5'- cCCUgGUAGAgCGCGUaccACGU--ACGCu- -3'
miRNA:   3'- -GGAgCAUCU-GCGCA---UGCAuuUGCGcu -5'
23252 3' -49.5 NC_005259.1 + 55465 0.68 0.941862
Target:  5'- aCC-CGUgcAGGgGUGUACGcguagaUGAGCGCGAa -3'
miRNA:   3'- -GGaGCA--UCUgCGCAUGC------AUUUGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 16784 0.69 0.936752
Target:  5'- aCUCGUGggucGACGCGgucGCGUAcauCGCGc -3'
miRNA:   3'- gGAGCAU----CUGCGCa--UGCAUuu-GCGCu -5'
23252 3' -49.5 NC_005259.1 + 50012 0.7 0.900253
Target:  5'- cCCUCGUgcacGGGCGC-UGCGUAAucCGCu- -3'
miRNA:   3'- -GGAGCA----UCUGCGcAUGCAUUu-GCGcu -5'
23252 3' -49.5 NC_005259.1 + 47229 0.7 0.893207
Target:  5'- cCCUC---GACGCuGUugGUGAACGuCGAc -3'
miRNA:   3'- -GGAGcauCUGCG-CAugCAUUUGC-GCU- -5'
23252 3' -49.5 NC_005259.1 + 41279 0.71 0.844658
Target:  5'- cCCUCGUcGGCGCacucauucgucacGaucCGUGAGCGCGAg -3'
miRNA:   3'- -GGAGCAuCUGCG-------------Cau-GCAUUUGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 35942 0.72 0.827741
Target:  5'- --aUGuUGGugGUGUugGUGAACGUGAc -3'
miRNA:   3'- ggaGC-AUCugCGCAugCAUUUGCGCU- -5'
23252 3' -49.5 NC_005259.1 + 34026 0.72 0.827741
Target:  5'- gCCUCGgcG--GCGUGCGUcgGCGCGu -3'
miRNA:   3'- -GGAGCauCugCGCAUGCAuuUGCGCu -5'
23252 3' -49.5 NC_005259.1 + 19206 0.73 0.769735
Target:  5'- gCUCGUGG-UGCGgGCGgcGACGUGGg -3'
miRNA:   3'- gGAGCAUCuGCGCaUGCauUUGCGCU- -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.