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
7362 3' -57.5 NC_001900.1 + 14617 0.66 0.540395
Target:  5'- uGGgaCAGCAGCCuguccaacgucggugAGCCCAacGAGguCGUCu -3'
miRNA:   3'- gCCaaGUCGUCGG---------------UCGGGU--CUC--GUAG- -5'
7362 3' -57.5 NC_001900.1 + 46595 0.66 0.53608
Target:  5'- uGGUcuacgUCGGUGG-CAGCCCGGAcGCAg- -3'
miRNA:   3'- gCCA-----AGUCGUCgGUCGGGUCU-CGUag -5'
7362 3' -57.5 NC_001900.1 + 44693 0.66 0.53608
Target:  5'- gCGGUccccugCGGCAGCCAGgCCGcuGGCcgCu -3'
miRNA:   3'- -GCCAa-----GUCGUCGGUCgGGUc-UCGuaG- -5'
7362 3' -57.5 NC_001900.1 + 13781 0.66 0.525346
Target:  5'- uCGaGUUCGGCAacgucucucGCCAGCCCA-AGCc-- -3'
miRNA:   3'- -GC-CAAGUCGU---------CGGUCGGGUcUCGuag -5'
7362 3' -57.5 NC_001900.1 + 4354 0.66 0.493663
Target:  5'- aGGUguggCAGCGGCCagcGGCCUGGcuGCcgCa -3'
miRNA:   3'- gCCAa---GUCGUCGG---UCGGGUCu-CGuaG- -5'
7362 3' -57.5 NC_001900.1 + 32281 0.66 0.493663
Target:  5'- -uGUUCGGCAGaaCGGCCC-GAGCcgCu -3'
miRNA:   3'- gcCAAGUCGUCg-GUCGGGuCUCGuaG- -5'
7362 3' -57.5 NC_001900.1 + 11336 0.66 0.483295
Target:  5'- uGGgaaagaAGcCAGCCAGCUCAuuGCAUCu -3'
miRNA:   3'- gCCaag---UC-GUCGGUCGGGUcuCGUAG- -5'
7362 3' -57.5 NC_001900.1 + 39733 0.66 0.482265
Target:  5'- ---aUCAGCcGCCAGCuCCGGgucagccAGCAUCc -3'
miRNA:   3'- gccaAGUCGuCGGUCG-GGUC-------UCGUAG- -5'
7362 3' -57.5 NC_001900.1 + 2335 0.67 0.469977
Target:  5'- gCGGaggCAGCcgcagagugaguugGGCCGGCUCGaAGCGUCg -3'
miRNA:   3'- -GCCaa-GUCG--------------UCGGUCGGGUcUCGUAG- -5'
7362 3' -57.5 NC_001900.1 + 45787 0.67 0.462883
Target:  5'- gCGGaagUC-GCGGCCGGUgaccaggCAGAGCAUCu -3'
miRNA:   3'- -GCCa--AGuCGUCGGUCGg------GUCUCGUAG- -5'
7362 3' -57.5 NC_001900.1 + 24650 0.67 0.452848
Target:  5'- gCGGUUCcugGGUgacGGCCAcGCUCAGgcguGGCGUCg -3'
miRNA:   3'- -GCCAAG---UCG---UCGGU-CGGGUC----UCGUAG- -5'
7362 3' -57.5 NC_001900.1 + 40508 0.67 0.433141
Target:  5'- cCGGUcCAGCggAGCCAGCUCGaAGCccAUCu -3'
miRNA:   3'- -GCCAaGUCG--UCGGUCGGGUcUCG--UAG- -5'
7362 3' -57.5 NC_001900.1 + 24971 0.68 0.423476
Target:  5'- uGGUggCGGCGGCgCAGCCgCAacggucccaguGGGUAUCa -3'
miRNA:   3'- gCCAa-GUCGUCG-GUCGG-GU-----------CUCGUAG- -5'
7362 3' -57.5 NC_001900.1 + 27355 0.68 0.40454
Target:  5'- aGGgcCAGCacgaAGCCAGCCCcuccAGAGCc-- -3'
miRNA:   3'- gCCaaGUCG----UCGGUCGGG----UCUCGuag -5'
7362 3' -57.5 NC_001900.1 + 48078 0.68 0.398965
Target:  5'- aGGUUCAugucgucgcaguaccGCAGCCGGCcguaggCCAGcAGCAgUCg -3'
miRNA:   3'- gCCAAGU---------------CGUCGGUCG------GGUC-UCGU-AG- -5'
7362 3' -57.5 NC_001900.1 + 21048 0.69 0.368316
Target:  5'- uGGUUCcugGGCA-CCAGCCCgAGGGC-UCc -3'
miRNA:   3'- gCCAAG---UCGUcGGUCGGG-UCUCGuAG- -5'
7362 3' -57.5 NC_001900.1 + 22006 0.69 0.351058
Target:  5'- aGGaUCAGCAGC--GCCCAG-GCGUa -3'
miRNA:   3'- gCCaAGUCGUCGguCGGGUCuCGUAg -5'
7362 3' -57.5 NC_001900.1 + 43479 0.7 0.295262
Target:  5'- uGGaUCGGcCGGCCAGCUCGGuGCGc- -3'
miRNA:   3'- gCCaAGUC-GUCGGUCGGGUCuCGUag -5'
7362 3' -57.5 NC_001900.1 + 46062 0.7 0.295262
Target:  5'- uCGG-UCAGCAGCaguGCggAGAGCAUCu -3'
miRNA:   3'- -GCCaAGUCGUCGgu-CGggUCUCGUAG- -5'
7362 3' -57.5 NC_001900.1 + 3388 0.72 0.240236
Target:  5'- uGGUgaGGcCGGCCGGCCguGAGCGUg -3'
miRNA:   3'- gCCAagUC-GUCGGUCGGguCUCGUAg -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.