miRNA display CGI


Results 1 - 20 of 33 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
28790 3' -53.5 NC_006146.1 + 14116 0.66 0.982285
Target:  5'- uGUCGGGGCugcuGGCGGCggCCUaCaGCCa -3'
miRNA:   3'- gUAGCUCUGc---CUGCCGa-GGAaGaUGG- -5'
28790 3' -53.5 NC_006146.1 + 40878 0.66 0.982285
Target:  5'- gGUCcgGAGACGGAgcCGGggCCUcgUCUGCg -3'
miRNA:   3'- gUAG--CUCUGCCU--GCCgaGGA--AGAUGg -5'
28790 3' -53.5 NC_006146.1 + 150503 0.66 0.982085
Target:  5'- uGUCgGAGGCGGAgggcaUGGguaggauaaaguuCUCCUUCUggGCCg -3'
miRNA:   3'- gUAG-CUCUGCCU-----GCC-------------GAGGAAGA--UGG- -5'
28790 3' -53.5 NC_006146.1 + 151900 0.66 0.981682
Target:  5'- -cUCGAGG-GGGCccccacuggggucuGGCUCCggccCUGCCg -3'
miRNA:   3'- guAGCUCUgCCUG--------------CCGAGGaa--GAUGG- -5'
28790 3' -53.5 NC_006146.1 + 169590 0.66 0.977263
Target:  5'- gCGUCGGGugGGgccugagggggcGCGGCgauugucgccgcccUCCcUCUGCUc -3'
miRNA:   3'- -GUAGCUCugCC------------UGCCG--------------AGGaAGAUGG- -5'
28790 3' -53.5 NC_006146.1 + 167725 0.66 0.977263
Target:  5'- gCGUCGGGugGGgccugagggggcGCGGCgauugucgccgcccUCCcUCUGCUc -3'
miRNA:   3'- -GUAGCUCugCC------------UGCCG--------------AGGaAGAUGG- -5'
28790 3' -53.5 NC_006146.1 + 159444 0.66 0.975545
Target:  5'- gGUCGAGGCGGGgaaCUCCUUgaggGCCg -3'
miRNA:   3'- gUAGCUCUGCCUgccGAGGAAga--UGG- -5'
28790 3' -53.5 NC_006146.1 + 64244 0.66 0.975545
Target:  5'- --cCGGGGagaGGACGGC-CCUg--ACCa -3'
miRNA:   3'- guaGCUCUg--CCUGCCGaGGAagaUGG- -5'
28790 3' -53.5 NC_006146.1 + 47089 0.66 0.972929
Target:  5'- --aCGaAGACGGugGGCUgCgccgUCUcguagaagGCCa -3'
miRNA:   3'- guaGC-UCUGCCugCCGAgGa---AGA--------UGG- -5'
28790 3' -53.5 NC_006146.1 + 27774 0.67 0.963875
Target:  5'- cCGUCGAGAagGGugGGuCUCaggUC-ACCg -3'
miRNA:   3'- -GUAGCUCUg-CCugCC-GAGga-AGaUGG- -5'
28790 3' -53.5 NC_006146.1 + 121736 0.67 0.960435
Target:  5'- -uUCGAGACGGGCaacaGGCUgcCCUggaACCc -3'
miRNA:   3'- guAGCUCUGCCUG----CCGA--GGAagaUGG- -5'
28790 3' -53.5 NC_006146.1 + 130511 0.67 0.960079
Target:  5'- cCcgCGGGAggcuacuacgcgcCGGGCGGCgaccagggggCCUUCUccGCCg -3'
miRNA:   3'- -GuaGCUCU-------------GCCUGCCGa---------GGAAGA--UGG- -5'
28790 3' -53.5 NC_006146.1 + 14206 0.67 0.956776
Target:  5'- aCGggGAGGCGGugGcGCgcaacgcgggCCUUCUgGCCg -3'
miRNA:   3'- -GUagCUCUGCCugC-CGa---------GGAAGA-UGG- -5'
28790 3' -53.5 NC_006146.1 + 50230 0.68 0.952892
Target:  5'- cCcgCGAGAUGGugGCGGUggcugCCUUgaACCa -3'
miRNA:   3'- -GuaGCUCUGCC--UGCCGa----GGAAgaUGG- -5'
28790 3' -53.5 NC_006146.1 + 96826 0.68 0.951683
Target:  5'- gGUgGGGACGGGCGggcagguugggcccGCUUCagccUCUGCCg -3'
miRNA:   3'- gUAgCUCUGCCUGC--------------CGAGGa---AGAUGG- -5'
28790 3' -53.5 NC_006146.1 + 39675 0.68 0.948781
Target:  5'- -uUgGAGGCGG-CgGGCUCCUgg-GCCu -3'
miRNA:   3'- guAgCUCUGCCuG-CCGAGGAagaUGG- -5'
28790 3' -53.5 NC_006146.1 + 120988 0.68 0.948781
Target:  5'- --cCGAGugGccucGGCGGcCUCCgaCUACCu -3'
miRNA:   3'- guaGCUCugC----CUGCC-GAGGaaGAUGG- -5'
28790 3' -53.5 NC_006146.1 + 130015 0.68 0.948781
Target:  5'- gAUCGcAGACGaGGCcccGGCUCCgUCU-CCg -3'
miRNA:   3'- gUAGC-UCUGC-CUG---CCGAGGaAGAuGG- -5'
28790 3' -53.5 NC_006146.1 + 47759 0.68 0.944438
Target:  5'- -cUgGGGACGGagaGCGGCcUCUUCUcGCCg -3'
miRNA:   3'- guAgCUCUGCC---UGCCGaGGAAGA-UGG- -5'
28790 3' -53.5 NC_006146.1 + 10206 0.68 0.944438
Target:  5'- --aCGAGACGGACcug-CC-UCUACCg -3'
miRNA:   3'- guaGCUCUGCCUGccgaGGaAGAUGG- -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.