miRNA display CGI


Results 1 - 20 of 36 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
26731 3' -53.8 NC_005808.1 + 982 0.67 0.712439
Target:  5'- gCCac-UUgGCCGCCUGGCGGUgccgUGGu -3'
miRNA:   3'- gGGaauAAgCGGCGGGUCGUCAa---GCC- -5'
26731 3' -53.8 NC_005808.1 + 1239 0.66 0.764702
Target:  5'- cCCCUUgagugauauaaaaAUUcCGCCGUCCGGCgAGcgcCGGu -3'
miRNA:   3'- -GGGAA-------------UAA-GCGGCGGGUCG-UCaa-GCC- -5'
26731 3' -53.8 NC_005808.1 + 1522 1.12 0.000738
Target:  5'- cCCCUUAUUCGCCGCCCAGCAGUUCGGc -3'
miRNA:   3'- -GGGAAUAAGCGGCGGGUCGUCAAGCC- -5'
26731 3' -53.8 NC_005808.1 + 2063 0.66 0.734089
Target:  5'- uUCCUcggggUCGUCGCCCAGCAccaCGa -3'
miRNA:   3'- -GGGAaua--AGCGGCGGGUCGUcaaGCc -5'
26731 3' -53.8 NC_005808.1 + 2668 0.66 0.755315
Target:  5'- --------gGUCGCCCAGguGUUCGa -3'
miRNA:   3'- gggaauaagCGGCGGGUCguCAAGCc -5'
26731 3' -53.8 NC_005808.1 + 2732 0.67 0.701485
Target:  5'- aCgCUUGagCGCgGCCCGGCGcuGcUCGGg -3'
miRNA:   3'- -GgGAAUaaGCGgCGGGUCGU--CaAGCC- -5'
26731 3' -53.8 NC_005808.1 + 4864 0.67 0.701485
Target:  5'- gCCCggucaggUCGuuGCCCAGCg---CGGc -3'
miRNA:   3'- -GGGaaua---AGCggCGGGUCGucaaGCC- -5'
26731 3' -53.8 NC_005808.1 + 5231 0.68 0.6459
Target:  5'- aCCCagcaGUUCGCgcaguuCGgCCGGCAGgUCGGg -3'
miRNA:   3'- -GGGaa--UAAGCG------GCgGGUCGUCaAGCC- -5'
26731 3' -53.8 NC_005808.1 + 5793 0.66 0.723311
Target:  5'- uCCCgccaUCGCgGCagcgCCAGCGGauagUCGGg -3'
miRNA:   3'- -GGGaauaAGCGgCG----GGUCGUCa---AGCC- -5'
26731 3' -53.8 NC_005808.1 + 7270 0.68 0.657087
Target:  5'- gCCUUGUgcaGCUuCUCGGCGGUggUCGGa -3'
miRNA:   3'- gGGAAUAag-CGGcGGGUCGUCA--AGCC- -5'
26731 3' -53.8 NC_005808.1 + 7426 0.78 0.171899
Target:  5'- aCCggAUg-GCCGgCCAGCAGUUCGGc -3'
miRNA:   3'- gGGaaUAagCGGCgGGUCGUCAAGCC- -5'
26731 3' -53.8 NC_005808.1 + 7796 0.84 0.072857
Target:  5'- aCCCU---UCGCCGCCCAGCAGgcgcUGGa -3'
miRNA:   3'- -GGGAauaAGCGGCGGGUCGUCaa--GCC- -5'
26731 3' -53.8 NC_005808.1 + 8396 0.7 0.496466
Target:  5'- ------aUCGCCGCCCacgugucgggcagcgAGCAGUUCGcGg -3'
miRNA:   3'- gggaauaAGCGGCGGG---------------UCGUCAAGC-C- -5'
26731 3' -53.8 NC_005808.1 + 8681 0.68 0.634699
Target:  5'- -gCUgcugCGCCGCCCAGguGUgCGc -3'
miRNA:   3'- ggGAauaaGCGGCGGGUCguCAaGCc -5'
26731 3' -53.8 NC_005808.1 + 9571 0.67 0.668251
Target:  5'- -aCUUGcacUUGCCGCCCAGCA--UCGu -3'
miRNA:   3'- ggGAAUa--AGCGGCGGGUCGUcaAGCc -5'
26731 3' -53.8 NC_005808.1 + 10113 0.66 0.743699
Target:  5'- gCCUUggAUUCgggcgcaucgGCCGCCCccaccucGGCAGUagGGg -3'
miRNA:   3'- gGGAA--UAAG----------CGGCGGG-------UCGUCAagCC- -5'
26731 3' -53.8 NC_005808.1 + 10284 0.7 0.492266
Target:  5'- gCCC-UGUagGUCGUCCAGCAccUCGGg -3'
miRNA:   3'- -GGGaAUAagCGGCGGGUCGUcaAGCC- -5'
26731 3' -53.8 NC_005808.1 + 11999 0.69 0.578861
Target:  5'- gCCUUuuccaCGUCGgCCAGCAGcgCGGc -3'
miRNA:   3'- gGGAAuaa--GCGGCgGGUCGUCaaGCC- -5'
26731 3' -53.8 NC_005808.1 + 16837 0.71 0.431413
Target:  5'- aUCgUUGc-CGCCGCCCAGCAGcgCGc -3'
miRNA:   3'- -GGgAAUaaGCGGCGGGUCGUCaaGCc -5'
26731 3' -53.8 NC_005808.1 + 17624 0.7 0.513426
Target:  5'- gCCUcgaUGUUUGCCGCaucgugCGGCAGUaCGGc -3'
miRNA:   3'- gGGA---AUAAGCGGCGg-----GUCGUCAaGCC- -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.