miRNA display CGI


Results 1 - 20 of 26 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
1343 5' -58.1 NC_001335.1 + 9048 1.07 0.000632
Target:  5'- aACCACUCAGCCCACUCACCGUCAGCGc -3'
miRNA:   3'- -UGGUGAGUCGGGUGAGUGGCAGUCGC- -5'
1343 5' -58.1 NC_001335.1 + 37982 0.73 0.198907
Target:  5'- uCCGCUgAGCCC---CACCGUCGGCa -3'
miRNA:   3'- uGGUGAgUCGGGugaGUGGCAGUCGc -5'
1343 5' -58.1 NC_001335.1 + 27816 0.71 0.285112
Target:  5'- aACCAC---GCCCAUUCGCCGUC-GUGg -3'
miRNA:   3'- -UGGUGaguCGGGUGAGUGGCAGuCGC- -5'
1343 5' -58.1 NC_001335.1 + 7055 0.7 0.307045
Target:  5'- aGCCGCguUCAGCCgCGuggaUCACCGUC-GCGg -3'
miRNA:   3'- -UGGUG--AGUCGG-GUg---AGUGGCAGuCGC- -5'
1343 5' -58.1 NC_001335.1 + 32953 0.7 0.338262
Target:  5'- gGCCccgGCUCcugAGCCUgagACcgCGCCGUCGGCGa -3'
miRNA:   3'- -UGG---UGAG---UCGGG---UGa-GUGGCAGUCGC- -5'
1343 5' -58.1 NC_001335.1 + 39623 0.69 0.354715
Target:  5'- --uGC-CAGCCCGCUUGCCGU-AGCGu -3'
miRNA:   3'- uggUGaGUCGGGUGAGUGGCAgUCGC- -5'
1343 5' -58.1 NC_001335.1 + 46268 0.69 0.354715
Target:  5'- cGCCGCguugCGGCCgucgCGCUgACCGUgGGCa -3'
miRNA:   3'- -UGGUGa---GUCGG----GUGAgUGGCAgUCGc -5'
1343 5' -58.1 NC_001335.1 + 4157 0.69 0.371723
Target:  5'- cGCCGC-CGGCUgcCUCGCCgGUCGGCa -3'
miRNA:   3'- -UGGUGaGUCGGguGAGUGG-CAGUCGc -5'
1343 5' -58.1 NC_001335.1 + 25794 0.68 0.435468
Target:  5'- -gCGgUCGGaaCC-CUCGCCGUCGGCGg -3'
miRNA:   3'- ugGUgAGUCg-GGuGAGUGGCAGUCGC- -5'
1343 5' -58.1 NC_001335.1 + 46764 0.67 0.445081
Target:  5'- -aCGC-CAGCCuCACggGCgGUCAGCGg -3'
miRNA:   3'- ugGUGaGUCGG-GUGagUGgCAGUCGC- -5'
1343 5' -58.1 NC_001335.1 + 5782 0.67 0.454811
Target:  5'- cCCAgCUCGGCCCGCUgGCCacgCAGa- -3'
miRNA:   3'- uGGU-GAGUCGGGUGAgUGGca-GUCgc -5'
1343 5' -58.1 NC_001335.1 + 26598 0.67 0.464655
Target:  5'- aGCCGaaCGGCCUugaGCcgGCCGUCGGCGa -3'
miRNA:   3'- -UGGUgaGUCGGG---UGagUGGCAGUCGC- -5'
1343 5' -58.1 NC_001335.1 + 38283 0.67 0.494829
Target:  5'- uCCGCUCGGCCgGCcagcccgcgacUCGCCaaauacucGUCGGCu -3'
miRNA:   3'- uGGUGAGUCGGgUG-----------AGUGG--------CAGUCGc -5'
1343 5' -58.1 NC_001335.1 + 19537 0.67 0.494829
Target:  5'- cCCACUCGagcaCCCGCUCGCC---AGCGa -3'
miRNA:   3'- uGGUGAGUc---GGGUGAGUGGcagUCGC- -5'
1343 5' -58.1 NC_001335.1 + 34405 0.66 0.505085
Target:  5'- gGCCAg-CGGCCCGCU-GCCGUUcGCu -3'
miRNA:   3'- -UGGUgaGUCGGGUGAgUGGCAGuCGc -5'
1343 5' -58.1 NC_001335.1 + 20525 0.66 0.515432
Target:  5'- cAUCAa-CAGCCaGCUCGCCGcgcUCGGCGc -3'
miRNA:   3'- -UGGUgaGUCGGgUGAGUGGC---AGUCGC- -5'
1343 5' -58.1 NC_001335.1 + 39850 0.66 0.535318
Target:  5'- cGCCGCaUCAGaucgccuCCCACUgcagGCCGUCGuGCGa -3'
miRNA:   3'- -UGGUG-AGUC-------GGGUGAg---UGGCAGU-CGC- -5'
1343 5' -58.1 NC_001335.1 + 23821 0.66 0.536373
Target:  5'- uCCAcCUCuGCCCca--GCCGUCAGCc -3'
miRNA:   3'- uGGU-GAGuCGGGugagUGGCAGUCGc -5'
1343 5' -58.1 NC_001335.1 + 2397 0.66 0.536373
Target:  5'- aGCCgGCcCAGCUCACUCcuuGCCGaccucgCGGCGa -3'
miRNA:   3'- -UGG-UGaGUCGGGUGAG---UGGCa-----GUCGC- -5'
1343 5' -58.1 NC_001335.1 + 41784 0.66 0.536373
Target:  5'- cAUCugUguGCCCGCcagcgUCcCCGUaCAGCGg -3'
miRNA:   3'- -UGGugAguCGGGUG-----AGuGGCA-GUCGC- -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.