miRNA display CGI


Results 1 - 20 of 27 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
30549 3' -56.4 NC_006548.1 + 14684 0.66 0.532306
Target:  5'- uCUGCCUGGaacuucuucaGCGu--GaCGCUgGAGCg -3'
miRNA:   3'- uGACGGACCg---------CGCuauC-GCGAgUUCG- -5'
30549 3' -56.4 NC_006548.1 + 3682 0.66 0.531209
Target:  5'- cGCUGCCgcucuGUcaguacgucccgaGCGAaGGgGCUCAAGCu -3'
miRNA:   3'- -UGACGGac---CG-------------CGCUaUCgCGAGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 23596 0.66 0.521379
Target:  5'- cACcGCCUGGCGgGGUcAGCgGgUCAuccGGCc -3'
miRNA:   3'- -UGaCGGACCGCgCUA-UCG-CgAGU---UCG- -5'
30549 3' -56.4 NC_006548.1 + 9572 0.66 0.521379
Target:  5'- --cGCCaggGGCgcacGCGAUcAGUGCaUCGAGCg -3'
miRNA:   3'- ugaCGGa--CCG----CGCUA-UCGCG-AGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 21227 0.66 0.504083
Target:  5'- aGCUGCCauggaucacgauacGGCgggcgGCGAUGGCGCcgCuGGCa -3'
miRNA:   3'- -UGACGGa-------------CCG-----CGCUAUCGCGa-GuUCG- -5'
30549 3' -56.4 NC_006548.1 + 14262 0.66 0.499798
Target:  5'- --cGCCUGGC-CGAUGGCcggaugacccuGgaCGAGCu -3'
miRNA:   3'- ugaCGGACCGcGCUAUCG-----------CgaGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 7940 0.66 0.499798
Target:  5'- cGCcGCCUgcaucauccGGCGCGcUGcGCGCUCAuGUa -3'
miRNA:   3'- -UGaCGGA---------CCGCGCuAU-CGCGAGUuCG- -5'
30549 3' -56.4 NC_006548.1 + 7481 0.67 0.468199
Target:  5'- uGCaGCCUggaaGGCGCGAUGGUcggcaccuuGCUCcucGGCc -3'
miRNA:   3'- -UGaCGGA----CCGCGCUAUCG---------CGAGu--UCG- -5'
30549 3' -56.4 NC_006548.1 + 1249 0.67 0.468199
Target:  5'- uUUGCUUGcGCGCGc-GGUGCggCAGGCu -3'
miRNA:   3'- uGACGGAC-CGCGCuaUCGCGa-GUUCG- -5'
30549 3' -56.4 NC_006548.1 + 25516 0.67 0.457895
Target:  5'- gGCgUGCCUcGGCGCGAUcuguGGCGaUCcGGUc -3'
miRNA:   3'- -UG-ACGGA-CCGCGCUA----UCGCgAGuUCG- -5'
30549 3' -56.4 NC_006548.1 + 12543 0.67 0.455849
Target:  5'- aGCUgGCCUGGUuCGAUuccgucgAGCGCUucaacgcCGGGCg -3'
miRNA:   3'- -UGA-CGGACCGcGCUA-------UCGCGA-------GUUCG- -5'
30549 3' -56.4 NC_006548.1 + 35360 0.67 0.447714
Target:  5'- --aGCCUGGaugaGcCGGUGGCGa-CGAGCg -3'
miRNA:   3'- ugaCGGACCg---C-GCUAUCGCgaGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 21052 0.68 0.408294
Target:  5'- cGCUGCaaUGGCGUGAgcacuGCcgaaGCUCAGGUc -3'
miRNA:   3'- -UGACGg-ACCGCGCUau---CG----CGAGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 12820 0.68 0.398783
Target:  5'- -gUGCCgcgcgagcGGCGCGGUaAGUccggugugGCUCGGGCg -3'
miRNA:   3'- ugACGGa-------CCGCGCUA-UCG--------CGAGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 35875 0.68 0.380191
Target:  5'- -aUGCC-GGCGCGAUccGCGCggCcGGCg -3'
miRNA:   3'- ugACGGaCCGCGCUAu-CGCGa-GuUCG- -5'
30549 3' -56.4 NC_006548.1 + 4485 0.68 0.380191
Target:  5'- gGCUcGUCUuGuCGCGGccgcUGGUGCUCAGGCg -3'
miRNA:   3'- -UGA-CGGAcC-GCGCU----AUCGCGAGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 5591 0.68 0.380191
Target:  5'- cUUGCgcaaCUGGUugGCGAUGGCG-UCGAGCu -3'
miRNA:   3'- uGACG----GACCG--CGCUAUCGCgAGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 23671 0.69 0.362189
Target:  5'- --cGCUU-GCGUGAUcaggucaaGGUGCUCAAGCa -3'
miRNA:   3'- ugaCGGAcCGCGCUA--------UCGCGAGUUCG- -5'
30549 3' -56.4 NC_006548.1 + 15845 0.69 0.327995
Target:  5'- --gGCCggUGGCGuCGAUGcagauGCGCUCAcAGCg -3'
miRNA:   3'- ugaCGG--ACCGC-GCUAU-----CGCGAGU-UCG- -5'
30549 3' -56.4 NC_006548.1 + 7399 0.7 0.319828
Target:  5'- -gUGCCUGGuCGCGAccaAGCuCUgCAGGCa -3'
miRNA:   3'- ugACGGACC-GCGCUa--UCGcGA-GUUCG- -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.