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
7279 3' -51.1 NC_001900.1 + 7918 1.14 0.001358
Target:  5'- aGACCGAGUACGGACUCGAUGUCAACCg -3'
miRNA:   3'- -CUGGCUCAUGCCUGAGCUACAGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 13507 0.75 0.416115
Target:  5'- cACCGcGU-CGGcCUCGAUGUCGAUCa -3'
miRNA:   3'- cUGGCuCAuGCCuGAGCUACAGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 37373 0.74 0.507918
Target:  5'- cACCGAG-ACGGGCUCGGguaGUCcAUCa -3'
miRNA:   3'- cUGGCUCaUGCCUGAGCUa--CAGuUGG- -5'
7279 3' -51.1 NC_001900.1 + 44489 0.73 0.540426
Target:  5'- aGGCCGAcgguGUAcCGGcGCUCGAUGUCucgcuGGCCg -3'
miRNA:   3'- -CUGGCU----CAU-GCC-UGAGCUACAG-----UUGG- -5'
7279 3' -51.1 NC_001900.1 + 30390 0.73 0.562484
Target:  5'- --aCGAGUACGGGaUCGAgaagGUCAACg -3'
miRNA:   3'- cugGCUCAUGCCUgAGCUa---CAGUUGg -5'
7279 3' -51.1 NC_001900.1 + 20980 0.72 0.573606
Target:  5'- cGCCGAagGCGGuCUCGGUGcccCAGCCa -3'
miRNA:   3'- cUGGCUcaUGCCuGAGCUACa--GUUGG- -5'
7279 3' -51.1 NC_001900.1 + 41609 0.71 0.674823
Target:  5'- -uCCG-GUGuCGGGCUCGAUGgagcacCGACCc -3'
miRNA:   3'- cuGGCuCAU-GCCUGAGCUACa-----GUUGG- -5'
7279 3' -51.1 NC_001900.1 + 37416 0.7 0.697131
Target:  5'- cGACCucGU-CGGGCUgGGUGUC-GCCg -3'
miRNA:   3'- -CUGGcuCAuGCCUGAgCUACAGuUGG- -5'
7279 3' -51.1 NC_001900.1 + 42188 0.7 0.740857
Target:  5'- cGACUcGGUGCGGACguuggUGAUGUUGuCCa -3'
miRNA:   3'- -CUGGcUCAUGCCUGa----GCUACAGUuGG- -5'
7279 3' -51.1 NC_001900.1 + 33838 0.7 0.740857
Target:  5'- cGGCCGAGacgccgaGGACaUCGuggaGUCAGCCa -3'
miRNA:   3'- -CUGGCUCaug----CCUG-AGCua--CAGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 25173 0.69 0.751531
Target:  5'- gGGCCGGGUACGaGGCgagccugccgaCGAUGaUCGACa -3'
miRNA:   3'- -CUGGCUCAUGC-CUGa----------GCUAC-AGUUGg -5'
7279 3' -51.1 NC_001900.1 + 397 0.68 0.821049
Target:  5'- aACCGuGUACGGcACUCGuucgaGUGcguacuggagcacUCAACCg -3'
miRNA:   3'- cUGGCuCAUGCC-UGAGC-----UAC-------------AGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 28960 0.68 0.821992
Target:  5'- cGACCcaGGUACGGGa-UGAUGUUGGCCc -3'
miRNA:   3'- -CUGGc-UCAUGCCUgaGCUACAGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 19869 0.68 0.821992
Target:  5'- -uCCGAGU-CGGGCUCcccGGUGUgGGCg -3'
miRNA:   3'- cuGGCUCAuGCCUGAG---CUACAgUUGg -5'
7279 3' -51.1 NC_001900.1 + 3300 0.67 0.849272
Target:  5'- uGCCGAGgucggccaUGCGGAUccuuucaaguUCGGaggGUCAACCc -3'
miRNA:   3'- cUGGCUC--------AUGCCUG----------AGCUa--CAGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 4330 0.67 0.849272
Target:  5'- --aCGAGgaaGGACUCGAaccuUCAACCg -3'
miRNA:   3'- cugGCUCaugCCUGAGCUac--AGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 13338 0.67 0.849272
Target:  5'- uGAUCGAGcGCcGACUCGAacagGUCGAgCg -3'
miRNA:   3'- -CUGGCUCaUGcCUGAGCUa---CAGUUgG- -5'
7279 3' -51.1 NC_001900.1 + 4882 0.67 0.849272
Target:  5'- aACCG-GUACGG-CUCGAcUGagagcuuccggcUCGACCa -3'
miRNA:   3'- cUGGCuCAUGCCuGAGCU-AC------------AGUUGG- -5'
7279 3' -51.1 NC_001900.1 + 2349 0.67 0.857899
Target:  5'- aGAgUGAGUugGGccgGCUCGAagcGUCGGCa -3'
miRNA:   3'- -CUgGCUCAugCC---UGAGCUa--CAGUUGg -5'
7279 3' -51.1 NC_001900.1 + 14039 0.67 0.866279
Target:  5'- uGCCGAcGUAcCGGACUgGuUGgCGACCu -3'
miRNA:   3'- cUGGCU-CAU-GCCUGAgCuACaGUUGG- -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.