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
12567 3' -54.6 NC_003345.1 + 73600 0.66 0.843078
Target:  5'- aAGGCCCGcguCGGuaUCUCCGGUaucacgaGGUCg -3'
miRNA:   3'- gUUUGGGCu--GUC--AGAGGCCGaa-----CCAG- -5'
12567 3' -54.6 NC_003345.1 + 7472 0.66 0.842221
Target:  5'- uCGAACCCGgcucccGCAGUCUuuacaCCGccacuuuGCUUGGUa -3'
miRNA:   3'- -GUUUGGGC------UGUCAGA-----GGC-------CGAACCAg -5'
12567 3' -54.6 NC_003345.1 + 37771 0.66 0.834413
Target:  5'- ---cCCCGACcGUCUUCGGaaucagcGGUCa -3'
miRNA:   3'- guuuGGGCUGuCAGAGGCCgaa----CCAG- -5'
12567 3' -54.6 NC_003345.1 + 61165 0.66 0.825543
Target:  5'- cCAAACUCGGCAcacccgagcGUCggCGGCgguaaUGGUCg -3'
miRNA:   3'- -GUUUGGGCUGU---------CAGagGCCGa----ACCAG- -5'
12567 3' -54.6 NC_003345.1 + 12656 0.66 0.816475
Target:  5'- --cGCCCGGCAGUUUUCuGCcgagUUGGUg -3'
miRNA:   3'- guuUGGGCUGUCAGAGGcCG----AACCAg -5'
12567 3' -54.6 NC_003345.1 + 72329 0.67 0.788185
Target:  5'- --cGCCCGGCGG-CUCCaGCgcguacUUGGUUa -3'
miRNA:   3'- guuUGGGCUGUCaGAGGcCG------AACCAG- -5'
12567 3' -54.6 NC_003345.1 + 2182 0.67 0.788185
Target:  5'- gCGAACCuCGugAGcuaagCUCaCGGUggagUGGUCg -3'
miRNA:   3'- -GUUUGG-GCugUCa----GAG-GCCGa---ACCAG- -5'
12567 3' -54.6 NC_003345.1 + 8064 0.67 0.788185
Target:  5'- gAAGCCCGACgacccGGUUcaUCCGGUgUGGa- -3'
miRNA:   3'- gUUUGGGCUG-----UCAG--AGGCCGaACCag -5'
12567 3' -54.6 NC_003345.1 + 53872 0.67 0.768522
Target:  5'- aCAAccuCCCGGCcaaCUCCGGUgagcUGGUCg -3'
miRNA:   3'- -GUUu--GGGCUGucaGAGGCCGa---ACCAG- -5'
12567 3' -54.6 NC_003345.1 + 70607 0.67 0.75848
Target:  5'- cCGAACCCGACcgagccaucGGUCauagUCGGCggGGUg -3'
miRNA:   3'- -GUUUGGGCUG---------UCAGa---GGCCGaaCCAg -5'
12567 3' -54.6 NC_003345.1 + 4257 0.67 0.75848
Target:  5'- uCGAAUCCacgagaGGCAGUCUCCGGUgucccacaGGUa -3'
miRNA:   3'- -GUUUGGG------CUGUCAGAGGCCGaa------CCAg -5'
12567 3' -54.6 NC_003345.1 + 76702 0.68 0.706614
Target:  5'- aAGAUgCGGCAGUaguacCUCCGGgUaaUGGUCa -3'
miRNA:   3'- gUUUGgGCUGUCA-----GAGGCCgA--ACCAG- -5'
12567 3' -54.6 NC_003345.1 + 23836 0.69 0.685298
Target:  5'- uGAGCgUCGGCAucGUCUCCGGCgucGUCa -3'
miRNA:   3'- gUUUG-GGCUGU--CAGAGGCCGaacCAG- -5'
12567 3' -54.6 NC_003345.1 + 41131 0.69 0.652978
Target:  5'- gAAACCuCGccGCAGaaaUCUUCGGCaUGGUCg -3'
miRNA:   3'- gUUUGG-GC--UGUC---AGAGGCCGaACCAG- -5'
12567 3' -54.6 NC_003345.1 + 73068 0.71 0.524454
Target:  5'- gGAGCgCGACGGUUgggCUGGCUugaagauuucUGGUCa -3'
miRNA:   3'- gUUUGgGCUGUCAGa--GGCCGA----------ACCAG- -5'
12567 3' -54.6 NC_003345.1 + 50132 0.72 0.483507
Target:  5'- aAGGCuCCGGCGG-CUCCGGCggUGGa- -3'
miRNA:   3'- gUUUG-GGCUGUCaGAGGCCGa-ACCag -5'
12567 3' -54.6 NC_003345.1 + 14644 0.73 0.425171
Target:  5'- gAAACCCGACAG-UUCCGGUgcgacgUGGa- -3'
miRNA:   3'- gUUUGGGCUGUCaGAGGCCGa-----ACCag -5'
12567 3' -54.6 NC_003345.1 + 60479 1.1 0.001531
Target:  5'- uCAAACCCGACAGUCUCCGGCUUGGUCg -3'
miRNA:   3'- -GUUUGGGCUGUCAGAGGCCGAACCAG- -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.