miRNA display CGI


Results 1 - 20 of 28 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
18260 3' -55.3 NC_004681.1 + 429 0.67 0.748968
Target:  5'- gUGGACGaCGAGGGCcuccgcuGGGCGUCcaaCCu -3'
miRNA:   3'- gACCUGC-GCUUCCG-------CUCGUAGagaGG- -5'
18260 3' -55.3 NC_004681.1 + 991 0.71 0.528299
Target:  5'- -cGGACGCcAGGGCGGcuucccGC-UCUCUCUg -3'
miRNA:   3'- gaCCUGCGcUUCCGCU------CGuAGAGAGG- -5'
18260 3' -55.3 NC_004681.1 + 8072 1.04 0.003506
Target:  5'- aCUGG-CGCGAAGGCGAGCAUCUCUCCg -3'
miRNA:   3'- -GACCuGCGCUUCCGCUCGUAGAGAGG- -5'
18260 3' -55.3 NC_004681.1 + 8617 0.67 0.739818
Target:  5'- aUGGcCGCGggGGCGG---UCUCaCCg -3'
miRNA:   3'- gACCuGCGCuuCCGCUcguAGAGaGG- -5'
18260 3' -55.3 NC_004681.1 + 9272 0.66 0.79887
Target:  5'- gCUGGAUGUccacGAAGGCGucgaAGacgUUCUCCg -3'
miRNA:   3'- -GACCUGCG----CUUCCGC----UCguaGAGAGG- -5'
18260 3' -55.3 NC_004681.1 + 13358 0.75 0.326726
Target:  5'- cCUGGACGCGGAauucGGCGAGCuugacgcggcgGUCgcgCUUCu -3'
miRNA:   3'- -GACCUGCGCUU----CCGCUCG-----------UAGa--GAGG- -5'
18260 3' -55.3 NC_004681.1 + 16086 0.66 0.817339
Target:  5'- ---uACGCGGAGGCcAGCAUCUggaCCg -3'
miRNA:   3'- gaccUGCGCUUCCGcUCGUAGAga-GG- -5'
18260 3' -55.3 NC_004681.1 + 16620 0.66 0.789383
Target:  5'- -aGGcCGCGAuggaggcGGCGGGCAUCagC-CCg -3'
miRNA:   3'- gaCCuGCGCUu------CCGCUCGUAGa-GaGG- -5'
18260 3' -55.3 NC_004681.1 + 17898 0.7 0.559615
Target:  5'- cCUGGGCgGCGgcGGCGAGgGUCcgguaCUCa -3'
miRNA:   3'- -GACCUG-CGCuuCCGCUCgUAGa----GAGg -5'
18260 3' -55.3 NC_004681.1 + 18335 0.67 0.760027
Target:  5'- -cGGugGCGguGGCGGGC-UCgggUUCa -3'
miRNA:   3'- gaCCugCGCuuCCGCUCGuAGa--GAGg -5'
18260 3' -55.3 NC_004681.1 + 19776 0.66 0.817339
Target:  5'- gUGGACGCu--GGUGuGCGg--CUCCg -3'
miRNA:   3'- gACCUGCGcuuCCGCuCGUagaGAGG- -5'
18260 3' -55.3 NC_004681.1 + 23476 0.71 0.507785
Target:  5'- aCUGGcgaACGUGGAGGCGGGCAggaggUUgaCCa -3'
miRNA:   3'- -GACC---UGCGCUUCCGCUCGUa----GAgaGG- -5'
18260 3' -55.3 NC_004681.1 + 26328 0.66 0.826301
Target:  5'- ---cGCGUaGggGGCGGGCAUCg--CCg -3'
miRNA:   3'- gaccUGCG-CuuCCGCUCGUAGagaGG- -5'
18260 3' -55.3 NC_004681.1 + 27808 0.71 0.538671
Target:  5'- aUGGGCGCGgcGGCGccaacgguGGCGcauccgucuUCUCaUCCg -3'
miRNA:   3'- gACCUGCGCuuCCGC--------UCGU---------AGAG-AGG- -5'
18260 3' -55.3 NC_004681.1 + 39286 0.8 0.156184
Target:  5'- cCUcGACGuCGAGGGCGAGCAUCUCcgcggCCc -3'
miRNA:   3'- -GAcCUGC-GCUUCCGCUCGUAGAGa----GG- -5'
18260 3' -55.3 NC_004681.1 + 42414 0.67 0.749979
Target:  5'- gUGGGCGgGGAuGGUGAGCuugaCgaugCUCCc -3'
miRNA:   3'- gACCUGCgCUU-CCGCUCGua--Ga---GAGG- -5'
18260 3' -55.3 NC_004681.1 + 45030 0.7 0.58078
Target:  5'- gUGGcggcuccaccGCGUGggGGCGAGCucuuuggcCUCUCg -3'
miRNA:   3'- gACC----------UGCGCuuCCGCUCGua------GAGAGg -5'
18260 3' -55.3 NC_004681.1 + 47545 0.67 0.769951
Target:  5'- aUGGcacuCGUGGAGGuUGAGCAUCcacccgaCUCCc -3'
miRNA:   3'- gACCu---GCGCUUCC-GCUCGUAGa------GAGG- -5'
18260 3' -55.3 NC_004681.1 + 49059 0.67 0.757026
Target:  5'- -gGGGCucgcaaagcucaGCGAAGacgggcacccugacGCGGGCAUC-CUCCg -3'
miRNA:   3'- gaCCUG------------CGCUUC--------------CGCUCGUAGaGAGG- -5'
18260 3' -55.3 NC_004681.1 + 49298 0.68 0.708756
Target:  5'- -cGaGGCGCGcAAGGCGGGCGg-UCUgCa -3'
miRNA:   3'- gaC-CUGCGC-UUCCGCUCGUagAGAgG- -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.