miRNA display CGI


Results 1 - 20 of 33 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
21262 3' -51.2 NC_004778.3 + 112681 1.12 0.005172
Target:  5'- gUCGACCUUACGAACGCGAGCCGUUACg -3'
miRNA:   3'- -AGCUGGAAUGCUUGCGCUCGGCAAUG- -5'
21262 3' -51.2 NC_004778.3 + 102183 0.8 0.435899
Target:  5'- gCGACUUUGUGGACGCGGGCUGUgACg -3'
miRNA:   3'- aGCUGGAAUGCUUGCGCUCGGCAaUG- -5'
21262 3' -51.2 NC_004778.3 + 21192 0.76 0.639296
Target:  5'- cUCG-CCg-GCGGACGUGcAGCCGUUGCu -3'
miRNA:   3'- -AGCuGGaaUGCUUGCGC-UCGGCAAUG- -5'
21262 3' -51.2 NC_004778.3 + 66154 0.75 0.692103
Target:  5'- gUCGACCUUgACGGACGCucGCaacuGUUGCa -3'
miRNA:   3'- -AGCUGGAA-UGCUUGCGcuCGg---CAAUG- -5'
21262 3' -51.2 NC_004778.3 + 76454 0.75 0.692103
Target:  5'- aCGGCgCUUGCcaAAUGCGAGCCGUUcACg -3'
miRNA:   3'- aGCUG-GAAUGc-UUGCGCUCGGCAA-UG- -5'
21262 3' -51.2 NC_004778.3 + 48611 0.72 0.828725
Target:  5'- uUCGACUUgccgUGCGuaccauagcGACGCGAccgGCCGUUGCc -3'
miRNA:   3'- -AGCUGGA----AUGC---------UUGCGCU---CGGCAAUG- -5'
21262 3' -51.2 NC_004778.3 + 124656 0.71 0.865124
Target:  5'- aUCGGCCUacgugacucgacgcACGGGCGCGGGCC-UUAUc -3'
miRNA:   3'- -AGCUGGAa-------------UGCUUGCGCUCGGcAAUG- -5'
21262 3' -51.2 NC_004778.3 + 112491 0.71 0.884619
Target:  5'- gCGGCCg-AUGAACuCGAGCCGgUGCa -3'
miRNA:   3'- aGCUGGaaUGCUUGcGCUCGGCaAUG- -5'
21262 3' -51.2 NC_004778.3 + 64304 0.7 0.911413
Target:  5'- gCGGCC--ACGGGCGCGAcgcgcugaguGaCCGUUGCu -3'
miRNA:   3'- aGCUGGaaUGCUUGCGCU----------C-GGCAAUG- -5'
21262 3' -51.2 NC_004778.3 + 127245 0.68 0.952795
Target:  5'- aCGGCCUgUGCaAACGCGAgcacucGCCGggcgUGCa -3'
miRNA:   3'- aGCUGGA-AUGcUUGCGCU------CGGCa---AUG- -5'
21262 3' -51.2 NC_004778.3 + 15691 0.68 0.952795
Target:  5'- aCGugCUcgACGAugGCGcGCUGcUGCg -3'
miRNA:   3'- aGCugGAa-UGCUugCGCuCGGCaAUG- -5'
21262 3' -51.2 NC_004778.3 + 117107 0.68 0.956832
Target:  5'- -aGugUUUGCGGcgACGCuGGGCCGUcgACa -3'
miRNA:   3'- agCugGAAUGCU--UGCG-CUCGGCAa-UG- -5'
21262 3' -51.2 NC_004778.3 + 107918 0.68 0.964185
Target:  5'- aCGccGCCcgACGAGCGCGAcGCgGUgcUGCg -3'
miRNA:   3'- aGC--UGGaaUGCUUGCGCU-CGgCA--AUG- -5'
21262 3' -51.2 NC_004778.3 + 53177 0.68 0.964185
Target:  5'- gUCGGCCg-ACGAaauACGCGAGCUa---- -3'
miRNA:   3'- -AGCUGGaaUGCU---UGCGCUCGGcaaug -5'
21262 3' -51.2 NC_004778.3 + 65749 0.68 0.964185
Target:  5'- aCGGCgUUugGcGCaGCGAGCCGg--- -3'
miRNA:   3'- aGCUGgAAugCuUG-CGCUCGGCaaug -5'
21262 3' -51.2 NC_004778.3 + 62239 0.68 0.967512
Target:  5'- aCGugCUcaACGAaaaaaaccgcGCGCGAGUCGUgggGCu -3'
miRNA:   3'- aGCugGAa-UGCU----------UGCGCUCGGCAa--UG- -5'
21262 3' -51.2 NC_004778.3 + 73377 0.68 0.967512
Target:  5'- cCGAUaaaUACGGaauuggcgccaACGCGAGCCGUacccUGCu -3'
miRNA:   3'- aGCUGga-AUGCU-----------UGCGCUCGGCA----AUG- -5'
21262 3' -51.2 NC_004778.3 + 6244 0.67 0.973497
Target:  5'- uUCGGCCUUuuGcAGCGCGGGCaaauugGCa -3'
miRNA:   3'- -AGCUGGAAugC-UUGCGCUCGgcaa--UG- -5'
21262 3' -51.2 NC_004778.3 + 112047 0.67 0.97617
Target:  5'- -gGGCCgcacguUGAACGCGGGCaCGUcgucUACg -3'
miRNA:   3'- agCUGGaau---GCUUGCGCUCG-GCA----AUG- -5'
21262 3' -51.2 NC_004778.3 + 111833 0.67 0.980915
Target:  5'- cUCGGCCUgcuagcCGAcaACgGCGGGCUGaUGCa -3'
miRNA:   3'- -AGCUGGAau----GCU--UG-CGCUCGGCaAUG- -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.