miRNA display CGI


Results 1 - 20 of 38 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
12800 3' -53.3 NC_003387.1 + 37275 1.11 0.001226
Target:  5'- gCCGCGCUUCACGCGCACGUUAGUGACc -3'
miRNA:   3'- -GGCGCGAAGUGCGCGUGCAAUCACUG- -5'
12800 3' -53.3 NC_003387.1 + 32718 0.76 0.297345
Target:  5'- -aGgGCUUCACgGCGCACGgcgcGGUGGCc -3'
miRNA:   3'- ggCgCGAAGUG-CGCGUGCaa--UCACUG- -5'
12800 3' -53.3 NC_003387.1 + 44468 0.75 0.345043
Target:  5'- -gGCGCUgCACGCcCGCGUgacgGGUGACc -3'
miRNA:   3'- ggCGCGAaGUGCGcGUGCAa---UCACUG- -5'
12800 3' -53.3 NC_003387.1 + 7904 0.74 0.370873
Target:  5'- cUCGUGCc-CGCGCGCACGU--GUGGCc -3'
miRNA:   3'- -GGCGCGaaGUGCGCGUGCAauCACUG- -5'
12800 3' -53.3 NC_003387.1 + 20503 0.73 0.427315
Target:  5'- gUCGCGC-UCGCGCaGCGCGgcgucgcgcucgucGGUGACg -3'
miRNA:   3'- -GGCGCGaAGUGCG-CGUGCaa------------UCACUG- -5'
12800 3' -53.3 NC_003387.1 + 19661 0.71 0.550308
Target:  5'- gCgGCGCUUgGCGCGCACcc-GGUGcgGCa -3'
miRNA:   3'- -GgCGCGAAgUGCGCGUGcaaUCAC--UG- -5'
12800 3' -53.3 NC_003387.1 + 24654 0.7 0.583212
Target:  5'- gCUGCGCgaggUCGCcaGCGC-CGagGGUGACu -3'
miRNA:   3'- -GGCGCGa---AGUG--CGCGuGCaaUCACUG- -5'
12800 3' -53.3 NC_003387.1 + 32223 0.7 0.605371
Target:  5'- gCCGCGCUgCGCGaGCGCGacgAGcUGGCc -3'
miRNA:   3'- -GGCGCGAaGUGCgCGUGCaa-UC-ACUG- -5'
12800 3' -53.3 NC_003387.1 + 40361 0.69 0.638761
Target:  5'- gCGgGCcgUCGCG-GCgGCGUUGGUGAUg -3'
miRNA:   3'- gGCgCGa-AGUGCgCG-UGCAAUCACUG- -5'
12800 3' -53.3 NC_003387.1 + 29321 0.69 0.649892
Target:  5'- gCCGCGCUUguCGgGCAUGUUcagcucgucGGcGACc -3'
miRNA:   3'- -GGCGCGAAguGCgCGUGCAA---------UCaCUG- -5'
12800 3' -53.3 NC_003387.1 + 4564 0.69 0.649892
Target:  5'- cCUGCGCgacCGCGCGgGCcucGGUGGCg -3'
miRNA:   3'- -GGCGCGaa-GUGCGCgUGcaaUCACUG- -5'
12800 3' -53.3 NC_003387.1 + 23091 0.69 0.649892
Target:  5'- cUCGCGCcgUCGCGCGUGCGgugcaccGACu -3'
miRNA:   3'- -GGCGCGa-AGUGCGCGUGCaauca--CUG- -5'
12800 3' -53.3 NC_003387.1 + 48548 0.69 0.661007
Target:  5'- aCCGCGCcgaggUCACGUGCcagGCGUgcaucGACg -3'
miRNA:   3'- -GGCGCGa----AGUGCGCG---UGCAauca-CUG- -5'
12800 3' -53.3 NC_003387.1 + 39398 0.68 0.683142
Target:  5'- cUCGUGCgcCugGCGCGCG--AGUGGg -3'
miRNA:   3'- -GGCGCGaaGugCGCGUGCaaUCACUg -5'
12800 3' -53.3 NC_003387.1 + 4832 0.68 0.683142
Target:  5'- aCGCGCUugUCggcgACGUGCACGccgAGaUGGCg -3'
miRNA:   3'- gGCGCGA--AG----UGCGCGUGCaa-UC-ACUG- -5'
12800 3' -53.3 NC_003387.1 + 4928 0.68 0.694141
Target:  5'- cCCgGCGCggcgUCGCGCGUuguCGaacGUGACa -3'
miRNA:   3'- -GG-CGCGa---AGUGCGCGu--GCaauCACUG- -5'
12800 3' -53.3 NC_003387.1 + 17162 0.68 0.694141
Target:  5'- cCCGCGCUgagCugGUGCGCcgccugGGcGGCg -3'
miRNA:   3'- -GGCGCGAa--GugCGCGUGcaa---UCaCUG- -5'
12800 3' -53.3 NC_003387.1 + 5913 0.68 0.694141
Target:  5'- uUGCGCcgcUUACGCGC-CGggGGcUGACa -3'
miRNA:   3'- gGCGCGa--AGUGCGCGuGCaaUC-ACUG- -5'
12800 3' -53.3 NC_003387.1 + 38792 0.68 0.703987
Target:  5'- aCCGCGCUUCAcCGCcuCACauagauagaaguuGUUAGcUGGCu -3'
miRNA:   3'- -GGCGCGAAGU-GCGc-GUG-------------CAAUC-ACUG- -5'
12800 3' -53.3 NC_003387.1 + 35464 0.68 0.725648
Target:  5'- gCGCGCagUC-CGCGaggugacCGCGUgAGUGACa -3'
miRNA:   3'- gGCGCGa-AGuGCGC-------GUGCAaUCACUG- -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.