miRNA display CGI


Results 1 - 20 of 21 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
17042 3' -52.9 NC_004333.2 + 36117 0.66 0.78842
Target:  5'- cGCAaGGUUGGCGa-CG--GCCUGCgCg -3'
miRNA:   3'- -CGUaUCAACCGCggGUauUGGACGgG- -5'
17042 3' -52.9 NC_004333.2 + 22190 0.66 0.778199
Target:  5'- gGCGgcGGUUcGGCGgCUGcGGCCUGCUCg -3'
miRNA:   3'- -CGUa-UCAA-CCGCgGGUaUUGGACGGG- -5'
17042 3' -52.9 NC_004333.2 + 4408 0.66 0.778199
Target:  5'- cCGUGGUUGaaGCCCuucuuuCCgGCCCa -3'
miRNA:   3'- cGUAUCAACcgCGGGuauu--GGaCGGG- -5'
17042 3' -52.9 NC_004333.2 + 31318 0.67 0.73583
Target:  5'- cGCcgAGcacGGCGCCCGcaauGCCgGCCa -3'
miRNA:   3'- -CGuaUCaa-CCGCGGGUau--UGGaCGGg -5'
17042 3' -52.9 NC_004333.2 + 8654 0.67 0.73583
Target:  5'- -------cGGCGCCCG--GCUUGCUCg -3'
miRNA:   3'- cguaucaaCCGCGGGUauUGGACGGG- -5'
17042 3' -52.9 NC_004333.2 + 27154 0.67 0.713931
Target:  5'- uGUAUGGUgucGGCGCgcgaucagCCAU-GCgUGCCCc -3'
miRNA:   3'- -CGUAUCAa--CCGCG--------GGUAuUGgACGGG- -5'
17042 3' -52.9 NC_004333.2 + 37699 0.67 0.713931
Target:  5'- gGCGcg--UGGCgGCUCaAUGGCCUGCUCg -3'
miRNA:   3'- -CGUaucaACCG-CGGG-UAUUGGACGGG- -5'
17042 3' -52.9 NC_004333.2 + 28641 0.67 0.713931
Target:  5'- -------cGGCGCCCAUcAGCUugcgaacgauUGCCCa -3'
miRNA:   3'- cguaucaaCCGCGGGUA-UUGG----------ACGGG- -5'
17042 3' -52.9 NC_004333.2 + 72 0.68 0.702847
Target:  5'- gGCGcGGUgcgcGCGCCCGguugccGCCUGCgCCu -3'
miRNA:   3'- -CGUaUCAac--CGCGGGUau----UGGACG-GG- -5'
17042 3' -52.9 NC_004333.2 + 22171 0.68 0.691689
Target:  5'- ------gUGGUGCUgaCAUGaACCUGCCCg -3'
miRNA:   3'- cguaucaACCGCGG--GUAU-UGGACGGG- -5'
17042 3' -52.9 NC_004333.2 + 45454 0.68 0.67822
Target:  5'- aGCAUGGcggccaacuacGGCGUCCAccuGCC-GCCCg -3'
miRNA:   3'- -CGUAUCaa---------CCGCGGGUau-UGGaCGGG- -5'
17042 3' -52.9 NC_004333.2 + 39671 0.68 0.669203
Target:  5'- cGCcgAGgcGGCGCgCuuccuggucGGCCUGCCUg -3'
miRNA:   3'- -CGuaUCaaCCGCGgGua-------UUGGACGGG- -5'
17042 3' -52.9 NC_004333.2 + 29570 0.68 0.657898
Target:  5'- ---gGGUUGcCGCCCGc-GCCUGCCg -3'
miRNA:   3'- cguaUCAACcGCGGGUauUGGACGGg -5'
17042 3' -52.9 NC_004333.2 + 18186 0.69 0.635223
Target:  5'- cGCAUGGUgcucgcgcucGGCGCCgGUGGCagcgcgGCCg -3'
miRNA:   3'- -CGUAUCAa---------CCGCGGgUAUUGga----CGGg -5'
17042 3' -52.9 NC_004333.2 + 25124 0.69 0.623877
Target:  5'- aGCAcGGc-GGCGCgCaCGUucgcGGCCUGCCCg -3'
miRNA:   3'- -CGUaUCaaCCGCG-G-GUA----UUGGACGGG- -5'
17042 3' -52.9 NC_004333.2 + 38623 0.69 0.612537
Target:  5'- cGCugcccgUGGUGCCCGUucuGAUCgGCCCg -3'
miRNA:   3'- -CGuauca-ACCGCGGGUA---UUGGaCGGG- -5'
17042 3' -52.9 NC_004333.2 + 45969 0.7 0.545218
Target:  5'- cGCGgcgAGgcgUGGUGuCCCG--GCCUGCCa -3'
miRNA:   3'- -CGUa--UCa--ACCGC-GGGUauUGGACGGg -5'
17042 3' -52.9 NC_004333.2 + 44437 0.71 0.523265
Target:  5'- uGCGUGcgaGGCGCUCG--GCCUGCCg -3'
miRNA:   3'- -CGUAUcaaCCGCGGGUauUGGACGGg -5'
17042 3' -52.9 NC_004333.2 + 9321 0.72 0.449501
Target:  5'- gGCGUucGUaUGGCGCCCGguACgUGUCCg -3'
miRNA:   3'- -CGUAu-CA-ACCGCGGGUauUGgACGGG- -5'
17042 3' -52.9 NC_004333.2 + 19706 0.72 0.419676
Target:  5'- cGCGUugcgacugUGGCGCgCGUAACUggcgGCCCg -3'
miRNA:   3'- -CGUAuca-----ACCGCGgGUAUUGGa---CGGG- -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.