miRNA display CGI


Results 1 - 20 of 22 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
16285 3' -59.2 NC_004084.1 + 9431 0.66 0.561666
Target:  5'- -aCCGCGCgaugggCCGCga-CGUCGACGa- -3'
miRNA:   3'- agGGUGCGa-----GGCGacaGCAGCUGCga -5'
16285 3' -59.2 NC_004084.1 + 14083 0.66 0.540902
Target:  5'- aCCgACGUagaCGUcgaUGUCGUCGugGCg -3'
miRNA:   3'- aGGgUGCGag-GCG---ACAGCAGCugCGa -5'
16285 3' -59.2 NC_004084.1 + 23014 0.66 0.530616
Target:  5'- cUCUCaacaACGCUCuCGggaagGUCGUCGACGUg -3'
miRNA:   3'- -AGGG----UGCGAG-GCga---CAGCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 16519 0.66 0.530616
Target:  5'- -aUCGCGUcgCCGCgGUCGUCGugGa- -3'
miRNA:   3'- agGGUGCGa-GGCGaCAGCAGCugCga -5'
16285 3' -59.2 NC_004084.1 + 44918 0.66 0.524478
Target:  5'- aCCCGCGC-CUaGCUGaggugacgaugacguUCGUCGACGa- -3'
miRNA:   3'- aGGGUGCGaGG-CGAC---------------AGCAGCUGCga -5'
16285 3' -59.2 NC_004084.1 + 56111 0.66 0.520401
Target:  5'- gUCCUcgucgACGUcgugcgCCGCagUGUCGUCGGCGUc -3'
miRNA:   3'- -AGGG-----UGCGa-----GGCG--ACAGCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 17325 0.66 0.510265
Target:  5'- cUCCCGCgGCgacggcCCGCaucgucUCGUCGACGUa -3'
miRNA:   3'- -AGGGUG-CGa-----GGCGac----AGCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 41060 0.66 0.510265
Target:  5'- aUCCagaaGCGgUCCGCgaGUaCGUCGACGa- -3'
miRNA:   3'- -AGGg---UGCgAGGCGa-CA-GCAGCUGCga -5'
16285 3' -59.2 NC_004084.1 + 2563 0.67 0.500212
Target:  5'- cUUCCGCGaagacgUCCGC-GUCGUUGACGg- -3'
miRNA:   3'- -AGGGUGCg-----AGGCGaCAGCAGCUGCga -5'
16285 3' -59.2 NC_004084.1 + 36415 0.67 0.470603
Target:  5'- gUCgAUGUucgUCCGCgcGUCGUCGACGUa -3'
miRNA:   3'- aGGgUGCG---AGGCGa-CAGCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 14700 0.67 0.459971
Target:  5'- gCCCAacuaaugGCUCgaaGCUGauccacuUCGUCGACGCg -3'
miRNA:   3'- aGGGUg------CGAGg--CGAC-------AGCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 47373 0.67 0.451367
Target:  5'- cCCCuuCG-UCCGC-GUCGUCGACGg- -3'
miRNA:   3'- aGGGu-GCgAGGCGaCAGCAGCUGCga -5'
16285 3' -59.2 NC_004084.1 + 46276 0.67 0.447572
Target:  5'- aUCCAuCGCUUCGUcgacggagucguaGUCGUCGACGUUg -3'
miRNA:   3'- aGGGU-GCGAGGCGa------------CAGCAGCUGCGA- -5'
16285 3' -59.2 NC_004084.1 + 50376 0.69 0.379047
Target:  5'- gUCCCACGCUaCCGUUGccuUC-UCGGUGCUg -3'
miRNA:   3'- -AGGGUGCGA-GGCGAC---AGcAGCUGCGA- -5'
16285 3' -59.2 NC_004084.1 + 47209 0.69 0.345917
Target:  5'- gCCUGCGgugggaCUCCGUUGUCGUCccACGCUg -3'
miRNA:   3'- aGGGUGC------GAGGCGACAGCAGc-UGCGA- -5'
16285 3' -59.2 NC_004084.1 + 35163 0.7 0.330148
Target:  5'- aUCCCAaagaGgaCC-UUGUCGUCGACGCc -3'
miRNA:   3'- -AGGGUg---CgaGGcGACAGCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 29338 0.7 0.307501
Target:  5'- gUCCCACGCgcucucgaacUCgCGCUG--GUCGACGCc -3'
miRNA:   3'- -AGGGUGCG----------AG-GCGACagCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 28763 0.72 0.246747
Target:  5'- -gCCAUGUaccagcugUCCGCgcgGUCGUCGACGUc -3'
miRNA:   3'- agGGUGCG--------AGGCGa--CAGCAGCUGCGa -5'
16285 3' -59.2 NC_004084.1 + 55273 0.73 0.206655
Target:  5'- aUCgGCGCUCUGCUGggUGUCGAuCGCUu -3'
miRNA:   3'- aGGgUGCGAGGCGACa-GCAGCU-GCGA- -5'
16285 3' -59.2 NC_004084.1 + 23568 0.74 0.172321
Target:  5'- -aUCGCGCUccCCGCUGUCGUCGAgagccagauCGCg -3'
miRNA:   3'- agGGUGCGA--GGCGACAGCAGCU---------GCGa -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.