miRNA display CGI


Results 1 - 20 of 53 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
30518 3' -59.7 NC_006548.1 + 29591 0.66 0.336152
Target:  5'- gGCugCcauucagGGAGCcGCAGCcagucuUGCGGcCGCGa -3'
miRNA:   3'- -CGugGa------CCUCGuCGUCG------ACGUC-GCGC- -5'
30518 3' -59.7 NC_006548.1 + 2231 0.69 0.217127
Target:  5'- aGCACCUGGuaggcGUAGCcggucAGCUcCGGCGCc -3'
miRNA:   3'- -CGUGGACCu----CGUCG-----UCGAcGUCGCGc -5'
30518 3' -59.7 NC_006548.1 + 18013 0.69 0.235151
Target:  5'- uGCGgCUGGAcgcuauGCA-CAGCUGCAG-GCGg -3'
miRNA:   3'- -CGUgGACCU------CGUcGUCGACGUCgCGC- -5'
30518 3' -59.7 NC_006548.1 + 32870 0.68 0.254413
Target:  5'- cGUGCUgGGGGCcuuGC-GCUGCuGCGCGg -3'
miRNA:   3'- -CGUGGaCCUCGu--CGuCGACGuCGCGC- -5'
30518 3' -59.7 NC_006548.1 + 30416 0.68 0.261116
Target:  5'- uGCGCCUGauGGGCGGCAcggcguucaauGCUGgGGCGa- -3'
miRNA:   3'- -CGUGGAC--CUCGUCGU-----------CGACgUCGCgc -5'
30518 3' -59.7 NC_006548.1 + 26404 0.67 0.288635
Target:  5'- uGCGCCUGGAagaaacacugucgGCGGCucacCUGCGGCugaGCa -3'
miRNA:   3'- -CGUGGACCU-------------CGUCGuc--GACGUCG---CGc -5'
30518 3' -59.7 NC_006548.1 + 30719 0.67 0.303609
Target:  5'- gGCACC-GGGGCAuCAGCaGCcccuacgAGCGCa -3'
miRNA:   3'- -CGUGGaCCUCGUcGUCGaCG-------UCGCGc -5'
30518 3' -59.7 NC_006548.1 + 19110 0.67 0.312096
Target:  5'- aGCA-CUGGAcgugcucaacGCgGGCAGC-GCAGCGCu -3'
miRNA:   3'- -CGUgGACCU----------CG-UCGUCGaCGUCGCGc -5'
30518 3' -59.7 NC_006548.1 + 27076 0.67 0.319967
Target:  5'- gGC-CCaGGAugcuGCGGCAGCcaguacGCAGCGCc -3'
miRNA:   3'- -CGuGGaCCU----CGUCGUCGa-----CGUCGCGc -5'
30518 3' -59.7 NC_006548.1 + 29664 0.69 0.211387
Target:  5'- gGUGCC-GGuGCGGCAGgUGCGGCuGCc -3'
miRNA:   3'- -CGUGGaCCuCGUCGUCgACGUCG-CGc -5'
30518 3' -59.7 NC_006548.1 + 32963 0.69 0.205779
Target:  5'- cGCGCCcGGuGCAGCGGCgcugGcCGGC-CGg -3'
miRNA:   3'- -CGUGGaCCuCGUCGUCGa---C-GUCGcGC- -5'
30518 3' -59.7 NC_006548.1 + 33303 0.69 0.205779
Target:  5'- cCGCgaGGAGCAuGCGGC-GCuGCGCa -3'
miRNA:   3'- cGUGgaCCUCGU-CGUCGaCGuCGCGc -5'
30518 3' -59.7 NC_006548.1 + 36826 0.74 0.091259
Target:  5'- uGCGCCUGGc-CGGguGCUGguGUGUGg -3'
miRNA:   3'- -CGUGGACCucGUCguCGACguCGCGC- -5'
30518 3' -59.7 NC_006548.1 + 31945 0.74 0.099496
Target:  5'- aCACCUGGcGCGuCuucccuuuGCUGCAGCGCGg -3'
miRNA:   3'- cGUGGACCuCGUcGu-------CGACGUCGCGC- -5'
30518 3' -59.7 NC_006548.1 + 6896 0.74 0.102394
Target:  5'- gGCGCCaauagcugggaUGGAugcagGCGGUAGCugUGCAGCGCGc -3'
miRNA:   3'- -CGUGG-----------ACCU-----CGUCGUCG--ACGUCGCGC- -5'
30518 3' -59.7 NC_006548.1 + 14382 0.73 0.111573
Target:  5'- -aAgCUGGAGCGGCGGCUgGCGGCa-- -3'
miRNA:   3'- cgUgGACCUCGUCGUCGA-CGUCGcgc -5'
30518 3' -59.7 NC_006548.1 + 33946 0.71 0.152186
Target:  5'- aGCgACCUGGAGguugcGCAGCUGUaccguGGCGCu -3'
miRNA:   3'- -CG-UGGACCUCgu---CGUCGACG-----UCGCGc -5'
30518 3' -59.7 NC_006548.1 + 15279 0.7 0.181614
Target:  5'- cCACC-GGGGCAGuCagaauuucuucaaccAGCUGguGCGCGa -3'
miRNA:   3'- cGUGGaCCUCGUC-G---------------UCGACguCGCGC- -5'
30518 3' -59.7 NC_006548.1 + 20976 0.7 0.194947
Target:  5'- gGCgACCU-GAGCuucGGCAGUgcucacgccauUGCAGCGCGa -3'
miRNA:   3'- -CG-UGGAcCUCG---UCGUCG-----------ACGUCGCGC- -5'
30518 3' -59.7 NC_006548.1 + 14457 0.7 0.200299
Target:  5'- -gACCUGGAcGCAcGCAGCga-GGCGCu -3'
miRNA:   3'- cgUGGACCU-CGU-CGUCGacgUCGCGc -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.