miRNA display CGI


Results 1 - 20 of 40 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
15869 3' -56.4 NC_004065.1 + 164191 0.73 0.664727
Target:  5'- aCUCGCgggCCCUCauGGAUCUCGcCUUUACg -3'
miRNA:   3'- -GGGCGa--GGGAG--UCUAGGGCuGAAGUG- -5'
15869 3' -56.4 NC_004065.1 + 225411 0.67 0.934133
Target:  5'- gCCGCUCCCUCucgaaGGGUCgUGGCg---- -3'
miRNA:   3'- gGGCGAGGGAG-----UCUAGgGCUGaagug -5'
15869 3' -56.4 NC_004065.1 + 113109 0.67 0.938828
Target:  5'- aCCGuCUCCCUCAGGaucagcagCUCGAUccCGCg -3'
miRNA:   3'- gGGC-GAGGGAGUCUa-------GGGCUGaaGUG- -5'
15869 3' -56.4 NC_004065.1 + 77707 0.67 0.938828
Target:  5'- cCCCGUguUCCUgucgCcGAUCCCGACguucCGCc -3'
miRNA:   3'- -GGGCG--AGGGa---GuCUAGGGCUGaa--GUG- -5'
15869 3' -56.4 NC_004065.1 + 94843 0.67 0.940644
Target:  5'- uUCCGCUUaggggcugucaaucaUCUUAGGUCCCGAagagcccUCACa -3'
miRNA:   3'- -GGGCGAG---------------GGAGUCUAGGGCUga-----AGUG- -5'
15869 3' -56.4 NC_004065.1 + 14706 0.66 0.943302
Target:  5'- aCCGCcaCCCaUCAGAUCCaCGcCgUCACc -3'
miRNA:   3'- gGGCGa-GGG-AGUCUAGG-GCuGaAGUG- -5'
15869 3' -56.4 NC_004065.1 + 32219 0.66 0.943302
Target:  5'- aCCCGCUCCaccacaaaCUCGGAgccgUCgGACU-CGCc -3'
miRNA:   3'- -GGGCGAGG--------GAGUCUa---GGgCUGAaGUG- -5'
15869 3' -56.4 NC_004065.1 + 151409 0.66 0.951596
Target:  5'- aCCgCGUUCaCCUCAGGcggCgCGACgacgUCGCg -3'
miRNA:   3'- -GG-GCGAG-GGAGUCUa--GgGCUGa---AGUG- -5'
15869 3' -56.4 NC_004065.1 + 29858 0.66 0.959035
Target:  5'- aUCCGCcaUCCCUugCGGAUCuuGACga-ACu -3'
miRNA:   3'- -GGGCG--AGGGA--GUCUAGggCUGaagUG- -5'
15869 3' -56.4 NC_004065.1 + 143198 0.67 0.93121
Target:  5'- cCCCGCUCuaccuagaucuguuCCUCAaggccgcguucgccGcgCCCGuCUUCGCu -3'
miRNA:   3'- -GGGCGAG--------------GGAGU--------------CuaGGGCuGAAGUG- -5'
15869 3' -56.4 NC_004065.1 + 142881 0.67 0.924078
Target:  5'- cCCCGgUCUC-CAGAgcuUCgCCGAUUUCAUc -3'
miRNA:   3'- -GGGCgAGGGaGUCU---AG-GGCUGAAGUG- -5'
15869 3' -56.4 NC_004065.1 + 18234 0.67 0.923552
Target:  5'- uCCCGCgCCuCUcCGGAgucgucUCCCGACUggaggcgUCGCu -3'
miRNA:   3'- -GGGCGaGG-GA-GUCU------AGGGCUGA-------AGUG- -5'
15869 3' -56.4 NC_004065.1 + 186834 0.72 0.722966
Target:  5'- aCCCGUUCCCccgaGGAUCCCGAgUgugagauguuuaUCAUg -3'
miRNA:   3'- -GGGCGAGGGag--UCUAGGGCUgA------------AGUG- -5'
15869 3' -56.4 NC_004065.1 + 93635 0.7 0.78748
Target:  5'- cCCCgGCUaccgaCCUCGGAuccccgcacccuUCCCGGCUUCuCg -3'
miRNA:   3'- -GGG-CGAg----GGAGUCU------------AGGGCUGAAGuG- -5'
15869 3' -56.4 NC_004065.1 + 93924 0.7 0.829835
Target:  5'- cCCCGCUucauugcaCCCUgccCAGGUCCCGAUUg--- -3'
miRNA:   3'- -GGGCGA--------GGGA---GUCUAGGGCUGAagug -5'
15869 3' -56.4 NC_004065.1 + 93681 0.68 0.875094
Target:  5'- cUCgGCUCCC-CAGcuUCCCGGCUacccuccucggcUCACc -3'
miRNA:   3'- -GGgCGAGGGaGUCu-AGGGCUGA------------AGUG- -5'
15869 3' -56.4 NC_004065.1 + 113680 0.68 0.881962
Target:  5'- uCUCGCUCUC-CAGcuucucUCCCGACgccgUCGCc -3'
miRNA:   3'- -GGGCGAGGGaGUCu-----AGGGCUGa---AGUG- -5'
15869 3' -56.4 NC_004065.1 + 94029 0.68 0.901311
Target:  5'- gUUGCUCCCUgccCAGGUCCCGG-UUCcCg -3'
miRNA:   3'- gGGCGAGGGA---GUCUAGGGCUgAAGuG- -5'
15869 3' -56.4 NC_004065.1 + 223762 0.67 0.918717
Target:  5'- gUCgGCUCCCUCucGUCCCcGCcgCACg -3'
miRNA:   3'- -GGgCGAGGGAGucUAGGGcUGaaGUG- -5'
15869 3' -56.4 NC_004065.1 + 125969 0.67 0.918717
Target:  5'- uCCCGCUCCagCGGGUCCUGcACgUCu- -3'
miRNA:   3'- -GGGCGAGGgaGUCUAGGGC-UGaAGug -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.