miRNA display CGI


Results 1 - 18 of 18 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
1500 5' -54.3 NC_001335.1 + 656 0.66 0.757655
Target:  5'- cGCGccGCCgUUCUugGCGGCGuaaUCGCGGUGAc -3'
miRNA:   3'- cCGC--UGG-AAGA--CGUCGU---AGUGUCGCU- -5'
1500 5' -54.3 NC_001335.1 + 3072 0.66 0.747147
Target:  5'- cGGCGucggucACCUUCggucaGCAGCAgCGCGGaGAg -3'
miRNA:   3'- -CCGC------UGGAAGa----CGUCGUaGUGUCgCU- -5'
1500 5' -54.3 NC_001335.1 + 16492 0.66 0.736518
Target:  5'- aGGCcACgUUCUGCAGguUgGgGGUGAu -3'
miRNA:   3'- -CCGcUGgAAGACGUCguAgUgUCGCU- -5'
1500 5' -54.3 NC_001335.1 + 43183 0.66 0.72578
Target:  5'- gGGCGACuaCUUCaugGCggggaagaagGGCAUCAaGGCGAa -3'
miRNA:   3'- -CCGCUG--GAAGa--CG----------UCGUAGUgUCGCU- -5'
1500 5' -54.3 NC_001335.1 + 19434 0.67 0.693038
Target:  5'- uGGCGACUUccgcCUGCgcGGCcugGUCGCuGGCGAg -3'
miRNA:   3'- -CCGCUGGAa---GACG--UCG---UAGUG-UCGCU- -5'
1500 5' -54.3 NC_001335.1 + 22840 0.67 0.681987
Target:  5'- cGGUGGCUgucuucucgUCUGCGGgGUUGguGCGGa -3'
miRNA:   3'- -CCGCUGGa--------AGACGUCgUAGUguCGCU- -5'
1500 5' -54.3 NC_001335.1 + 20196 0.67 0.659748
Target:  5'- cGgGAUCUUCUGCAGCAggucuUCgACAG-GAu -3'
miRNA:   3'- cCgCUGGAAGACGUCGU-----AG-UGUCgCU- -5'
1500 5' -54.3 NC_001335.1 + 11210 0.67 0.659748
Target:  5'- -uCGACCcgUCU-CAGgGUCGCGGCGGu -3'
miRNA:   3'- ccGCUGGa-AGAcGUCgUAGUGUCGCU- -5'
1500 5' -54.3 NC_001335.1 + 26187 0.68 0.615039
Target:  5'- cGGCGugCUccgagugCUGCuucgccAGCAUCACGGUu- -3'
miRNA:   3'- -CCGCugGAa------GACG------UCGUAGUGUCGcu -5'
1500 5' -54.3 NC_001335.1 + 1160 0.68 0.615039
Target:  5'- gGGCGGCgUag-GCGGCGUCGgaGGCGGg -3'
miRNA:   3'- -CCGCUGgAagaCGUCGUAGUg-UCGCU- -5'
1500 5' -54.3 NC_001335.1 + 37294 0.68 0.603875
Target:  5'- gGGCGAUCUUCaGCAGgAUCAUcaUGAc -3'
miRNA:   3'- -CCGCUGGAAGaCGUCgUAGUGucGCU- -5'
1500 5' -54.3 NC_001335.1 + 10748 0.68 0.592735
Target:  5'- cGCGugCUag-GCGGCGUCGgAGCGc -3'
miRNA:   3'- cCGCugGAagaCGUCGUAGUgUCGCu -5'
1500 5' -54.3 NC_001335.1 + 4178 0.69 0.537728
Target:  5'- cGCGGCCgagCUGCuuuGCAUCGCcGCc- -3'
miRNA:   3'- cCGCUGGaa-GACGu--CGUAGUGuCGcu -5'
1500 5' -54.3 NC_001335.1 + 15156 0.7 0.505562
Target:  5'- cGCgGGCCUUCUGgccCAGCuUCAgCAGCGGc -3'
miRNA:   3'- cCG-CUGGAAGAC---GUCGuAGU-GUCGCU- -5'
1500 5' -54.3 NC_001335.1 + 16398 0.71 0.428227
Target:  5'- aGCGGCCUugaccgucuccagcgUCgggGCAGCGUCGaGGCGGc -3'
miRNA:   3'- cCGCUGGA---------------AGa--CGUCGUAGUgUCGCU- -5'
1500 5' -54.3 NC_001335.1 + 551 0.73 0.351448
Target:  5'- cGCGGCCUggaauaUGCcGCGUCACcGCGAu -3'
miRNA:   3'- cCGCUGGAag----ACGuCGUAGUGuCGCU- -5'
1500 5' -54.3 NC_001335.1 + 50053 0.82 0.087753
Target:  5'- cGGCGACCaUCUcggacaGCAGCGUCACGGUGu -3'
miRNA:   3'- -CCGCUGGaAGA------CGUCGUAGUGUCGCu -5'
1500 5' -54.3 NC_001335.1 + 34308 1.11 0.000753
Target:  5'- uGGCGACCUUCUGCAGCAUCACAGCGAa -3'
miRNA:   3'- -CCGCUGGAAGACGUCGUAGUGUCGCU- -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.