miRNA display CGI


Results 1 - 20 of 277 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
23601 3' -63.3 NC_005261.1 + 138218 0.66 0.555141
Target:  5'- --gCGGaCGGCgGCUCggCCGCCgCGCg- -3'
miRNA:   3'- agaGCC-GCCG-CGAGaaGGCGG-GCGgg -5'
23601 3' -63.3 NC_005261.1 + 137997 0.69 0.419772
Target:  5'- gCUgCGGCGGCgGCUgCggCgGCCCgcaGCCCg -3'
miRNA:   3'- aGA-GCCGCCG-CGA-GaaGgCGGG---CGGG- -5'
23601 3' -63.3 NC_005261.1 + 135138 0.7 0.356192
Target:  5'- --gCGGCGGgggagacgaCGCcgCcUCCGCCCGCUCg -3'
miRNA:   3'- agaGCCGCC---------GCGa-GaAGGCGGGCGGG- -5'
23601 3' -63.3 NC_005261.1 + 135077 0.66 0.603368
Target:  5'- uUC-CGGCGGCGggCUcgCgGCCCGgCg -3'
miRNA:   3'- -AGaGCCGCCGCgaGAa-GgCGGGCgGg -5'
23601 3' -63.3 NC_005261.1 + 134095 0.74 0.198367
Target:  5'- cUCUCGGCGcgccggcgcGCGCUCgccgccgacUUCCGCCuCGaCCCc -3'
miRNA:   3'- -AGAGCCGC---------CGCGAG---------AAGGCGG-GC-GGG- -5'
23601 3' -63.3 NC_005261.1 + 133785 0.7 0.371438
Target:  5'- cCUCGuGCGGCGCaUC--CCGCCCgggcuGCUCg -3'
miRNA:   3'- aGAGC-CGCCGCG-AGaaGGCGGG-----CGGG- -5'
23601 3' -63.3 NC_005261.1 + 133615 0.67 0.498892
Target:  5'- cCUCGcGCuGGCGCUgUgggCCGCgCuCGCCg -3'
miRNA:   3'- aGAGC-CG-CCGCGAgAa--GGCG-G-GCGGg -5'
23601 3' -63.3 NC_005261.1 + 133143 0.66 0.574326
Target:  5'- cCUgCGGUGcGCGCUCgccgCCGUcggcgucgCCGCCg -3'
miRNA:   3'- aGA-GCCGC-CGCGAGaa--GGCG--------GGCGGg -5'
23601 3' -63.3 NC_005261.1 + 132584 0.66 0.583977
Target:  5'- -gUCGGC-GCGCccgCggaCGCCCgGCCCg -3'
miRNA:   3'- agAGCCGcCGCGa--GaagGCGGG-CGGG- -5'
23601 3' -63.3 NC_005261.1 + 132382 0.69 0.403239
Target:  5'- gCUC-GCGGCGCUgUUCCccgaGgCCGCCg -3'
miRNA:   3'- aGAGcCGCCGCGAgAAGG----CgGGCGGg -5'
23601 3' -63.3 NC_005261.1 + 132186 0.68 0.444459
Target:  5'- --gCGGgGGCccgcauuGCUUgggUCCggGCCCGCCCg -3'
miRNA:   3'- agaGCCgCCG-------CGAGa--AGG--CGGGCGGG- -5'
23601 3' -63.3 NC_005261.1 + 131771 0.67 0.526735
Target:  5'- --gCGGCgGGCGCgccgCUgggccccgaCGCCgCGCCCg -3'
miRNA:   3'- agaGCCG-CCGCGa---GAag-------GCGG-GCGGG- -5'
23601 3' -63.3 NC_005261.1 + 131196 0.66 0.603368
Target:  5'- ----cGCGGCGCggucgCCGCCggcgCGCCCg -3'
miRNA:   3'- agagcCGCCGCGagaa-GGCGG----GCGGG- -5'
23601 3' -63.3 NC_005261.1 + 131148 0.69 0.380011
Target:  5'- gUCUCuuuuGCGGCGCUCgccgccuucugcugCCGCagcggcuaCGCCCg -3'
miRNA:   3'- -AGAGc---CGCCGCGAGaa------------GGCGg-------GCGGG- -5'
23601 3' -63.3 NC_005261.1 + 130121 0.68 0.445324
Target:  5'- cCUUGGCGaGcCGCcgCgcgCCGUCCGCCg -3'
miRNA:   3'- aGAGCCGC-C-GCGa-Gaa-GGCGGGCGGg -5'
23601 3' -63.3 NC_005261.1 + 129220 0.67 0.526735
Target:  5'- gCUgGuGCGGCGCcucaaguggCUcCCGCCCaGCCUc -3'
miRNA:   3'- aGAgC-CGCCGCGa--------GAaGGCGGG-CGGG- -5'
23601 3' -63.3 NC_005261.1 + 128707 0.78 0.104552
Target:  5'- gCUCGGgaGGCGCgcccgggccCCGCCCGCCCg -3'
miRNA:   3'- aGAGCCg-CCGCGagaa-----GGCGGGCGGG- -5'
23601 3' -63.3 NC_005261.1 + 127698 0.66 0.545618
Target:  5'- --cCGGCGGCGCcggaggagCUgcgcgUgGCCUGCCUg -3'
miRNA:   3'- agaGCCGCCGCGa-------GAa----GgCGGGCGGG- -5'
23601 3' -63.3 NC_005261.1 + 127315 0.68 0.445324
Target:  5'- --gCGGUGGgGCcCUgCCGCCCGCg- -3'
miRNA:   3'- agaGCCGCCgCGaGAaGGCGGGCGgg -5'
23601 3' -63.3 NC_005261.1 + 127112 0.67 0.521118
Target:  5'- --gCGGUGacccgcgauuuuuauGCGCgCgcCCGCCCGCCCc -3'
miRNA:   3'- agaGCCGC---------------CGCGaGaaGGCGGGCGGG- -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.