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
20758 3' -48.2 NC_004688.1 + 5601 0.66 0.996856
Target:  5'- uGCGaCGUGAAGAAGGacuuguaccccaGCGAgCGGGCu -3'
miRNA:   3'- uUGC-GUAUUUUUUCC------------CGUUgGCCUGu -5'
20758 3' -48.2 NC_004688.1 + 108770 0.66 0.996856
Target:  5'- cGCGCGgaacuuUGGGAcAGGGCAGacaUGGACGu -3'
miRNA:   3'- uUGCGU------AUUUUuUCCCGUUg--GCCUGU- -5'
20758 3' -48.2 NC_004688.1 + 102017 0.66 0.996261
Target:  5'- gAACGCuguggGUGAGAuugccaAAGGGCAGuuGGAa- -3'
miRNA:   3'- -UUGCG-----UAUUUU------UUCCCGUUggCCUgu -5'
20758 3' -48.2 NC_004688.1 + 43541 0.66 0.994794
Target:  5'- cAGCGCc---GAGGGGGUcGCCGcGACGg -3'
miRNA:   3'- -UUGCGuauuUUUUCCCGuUGGC-CUGU- -5'
20758 3' -48.2 NC_004688.1 + 858 0.67 0.992785
Target:  5'- -cCGCGUGGAGcAGgcgguguGGCAGCgGGACGg -3'
miRNA:   3'- uuGCGUAUUUUuUC-------CCGUUGgCCUGU- -5'
20758 3' -48.2 NC_004688.1 + 13234 0.67 0.991754
Target:  5'- cACGUAggguccGGGGUAuCCGGGCAg -3'
miRNA:   3'- uUGCGUauuuuuUCCCGUuGGCCUGU- -5'
20758 3' -48.2 NC_004688.1 + 49078 0.67 0.991754
Target:  5'- -cCGCc-AAAGGAGGGCucCCGGugAg -3'
miRNA:   3'- uuGCGuaUUUUUUCCCGuuGGCCugU- -5'
20758 3' -48.2 NC_004688.1 + 1751 0.67 0.990475
Target:  5'- cAGCGCAUAGGcGAGGGCGG-CGuACGu -3'
miRNA:   3'- -UUGCGUAUUUuUUCCCGUUgGCcUGU- -5'
20758 3' -48.2 NC_004688.1 + 23035 0.67 0.989044
Target:  5'- gAugGCcgGGGuGAGGGCAaggcucugagagGCCGuGACAa -3'
miRNA:   3'- -UugCGuaUUUuUUCCCGU------------UGGC-CUGU- -5'
20758 3' -48.2 NC_004688.1 + 3702 0.68 0.983739
Target:  5'- aGGCgGCAUGcAAAA-GGCGAUCGGGCGg -3'
miRNA:   3'- -UUG-CGUAUuUUUUcCCGUUGGCCUGU- -5'
20758 3' -48.2 NC_004688.1 + 80089 0.68 0.983739
Target:  5'- cAGCGCAUGGccauAGGGGCAuUCGGuGCGc -3'
miRNA:   3'- -UUGCGUAUUuu--UUCCCGUuGGCC-UGU- -5'
20758 3' -48.2 NC_004688.1 + 56822 0.69 0.976684
Target:  5'- cGGCaGCAUGAGuagcGGGGCcaacGAUCGGACGa -3'
miRNA:   3'- -UUG-CGUAUUUuu--UCCCG----UUGGCCUGU- -5'
20758 3' -48.2 NC_004688.1 + 75890 0.69 0.970873
Target:  5'- -uCGCGUAccAGAGGGCGG-CGGGCc -3'
miRNA:   3'- uuGCGUAUuuUUUCCCGUUgGCCUGu -5'
20758 3' -48.2 NC_004688.1 + 23175 0.7 0.956686
Target:  5'- cAGCGCcgccugcuGGGCGGCCGGAgAg -3'
miRNA:   3'- -UUGCGuauuuuuuCCCGUUGGCCUgU- -5'
20758 3' -48.2 NC_004688.1 + 15196 0.7 0.95627
Target:  5'- cGGCaCAUGAAAGguguccAGGGCAACUGGAa- -3'
miRNA:   3'- -UUGcGUAUUUUU------UCCCGUUGGCCUgu -5'
20758 3' -48.2 NC_004688.1 + 18737 0.7 0.951956
Target:  5'- uGACGcCAUccAGGAGGGCGcCaCGGACAu -3'
miRNA:   3'- -UUGC-GUAuuUUUUCCCGUuG-GCCUGU- -5'
20758 3' -48.2 NC_004688.1 + 49738 0.71 0.937342
Target:  5'- uGGCGCAaGAAGGaccccgucuGGcGGCGGCCGGAUg -3'
miRNA:   3'- -UUGCGUaUUUUU---------UC-CCGUUGGCCUGu -5'
20758 3' -48.2 NC_004688.1 + 109657 0.78 0.636448
Target:  5'- gAGgGCAgu----AGGGCAACCGGGCAg -3'
miRNA:   3'- -UUgCGUauuuuuUCCCGUUGGCCUGU- -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.