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 + 6244 0.67 0.973497
Target:  5'- uUCGGCCUUuuGcAGCGCGGGCaaauugGCa -3'
miRNA:   3'- -AGCUGGAAugC-UUGCGCUCGgcaa--UG- -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 + 21192 0.76 0.639296
Target:  5'- cUCG-CCg-GCGGACGUGcAGCCGUUGCu -3'
miRNA:   3'- -AGCuGGaaUGCUUGCGC-UCGGCAAUG- -5'
21262 3' -51.2 NC_004778.3 + 21655 0.66 0.988243
Target:  5'- uUCGGCCg-GCGGugGCGGcGCCa---- -3'
miRNA:   3'- -AGCUGGaaUGCUugCGCU-CGGcaaug -5'
21262 3' -51.2 NC_004778.3 + 26739 0.66 0.988243
Target:  5'- uUCGACgCUuggUGCGAACGaCGAcaacuaugcgGCCG-UGCg -3'
miRNA:   3'- -AGCUG-GA---AUGCUUGC-GCU----------CGGCaAUG- -5'
21262 3' -51.2 NC_004778.3 + 36509 0.66 0.988243
Target:  5'- aUGACg-UugGAGugcaGCGuGCCGUUGCg -3'
miRNA:   3'- aGCUGgaAugCUUg---CGCuCGGCAAUG- -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 + 50139 0.66 0.989677
Target:  5'- gUCGAgUaacacgUACgGAAUGCGAucGCCGUUGCc -3'
miRNA:   3'- -AGCUgGa-----AUG-CUUGCGCU--CGGCAAUG- -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 + 61352 0.66 0.990971
Target:  5'- uUCGGCUUcaugUGCGGACG-GcGCCGgcGCg -3'
miRNA:   3'- -AGCUGGA----AUGCUUGCgCuCGGCaaUG- -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 + 64304 0.7 0.911413
Target:  5'- gCGGCC--ACGGGCGCGAcgcgcugaguGaCCGUUGCu -3'
miRNA:   3'- aGCUGGaaUGCUUGCGCU----------C-GGCAAUG- -5'
21262 3' -51.2 NC_004778.3 + 64610 0.66 0.990971
Target:  5'- cCGGCCUcggcguCGAACGUGuaguuGUCGggGCa -3'
miRNA:   3'- aGCUGGAau----GCUUGCGCu----CGGCaaUG- -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 + 66154 0.75 0.692103
Target:  5'- gUCGACCUUgACGGACGCucGCaacuGUUGCa -3'
miRNA:   3'- -AGCUGGAA-UGCUUGCGcuCGg---CAAUG- -5'
21262 3' -51.2 NC_004778.3 + 72518 0.66 0.984915
Target:  5'- gUCGACgacGCGGACGCcgacGAGCCGa--- -3'
miRNA:   3'- -AGCUGgaaUGCUUGCG----CUCGGCaaug -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 + 76454 0.75 0.692103
Target:  5'- aCGGCgCUUGCcaAAUGCGAGCCGUUcACg -3'
miRNA:   3'- aGCUG-GAAUGc-UUGCGCUCGGCAA-UG- -5'
21262 3' -51.2 NC_004778.3 + 77109 0.66 0.983004
Target:  5'- aCGG-CUUGCG-AUGCGGGCCaGUUGg -3'
miRNA:   3'- aGCUgGAAUGCuUGCGCUCGG-CAAUg -5'
21262 3' -51.2 NC_004778.3 + 83442 0.66 0.989677
Target:  5'- uUCGAUaa-GCGAuaGCGCGgAGCCGccGCg -3'
miRNA:   3'- -AGCUGgaaUGCU--UGCGC-UCGGCaaUG- -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.