miRNA display CGI


Results 1 - 13 of 13 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
12356 3' -56.1 NC_003324.1 + 45483 0.66 0.685837
Target:  5'- cUUCGACguGGUGUaucGUCGAGCGCgGaaaaCGGu -3'
miRNA:   3'- -AAGCUG--CCAUA---CAGCUCGCGaCg---GCU- -5'
12356 3' -56.1 NC_003324.1 + 17990 0.66 0.682579
Target:  5'- aUCGugGGccGUGUCGAuCGCUucggauaccgauugGCCGGc -3'
miRNA:   3'- aAGCugCCa-UACAGCUcGCGA--------------CGGCU- -5'
12356 3' -56.1 NC_003324.1 + 2077 0.66 0.674959
Target:  5'- -aUGACGGUugagaacGUCGAGCGaaaGCCGu -3'
miRNA:   3'- aaGCUGCCAua-----CAGCUCGCga-CGGCu -5'
12356 3' -56.1 NC_003324.1 + 18469 0.66 0.642125
Target:  5'- cUCGcAgGGUccGUC-AGCGCUGCCa- -3'
miRNA:   3'- aAGC-UgCCAuaCAGcUCGCGACGGcu -5'
12356 3' -56.1 NC_003324.1 + 43147 0.66 0.642125
Target:  5'- cUCGACGGcgagcuUGUUGAGCGagcGCCa- -3'
miRNA:   3'- aAGCUGCCau----ACAGCUCGCga-CGGcu -5'
12356 3' -56.1 NC_003324.1 + 19009 0.67 0.608113
Target:  5'- --aGACGGUAagguguUGagcuucucgaaguUCGAGCGCgcaGCCGAa -3'
miRNA:   3'- aagCUGCCAU------AC-------------AGCUCGCGa--CGGCU- -5'
12356 3' -56.1 NC_003324.1 + 38104 0.67 0.598263
Target:  5'- gUCGGCGGaAUGUUGAcGCGCcccgugcGCCGc -3'
miRNA:   3'- aAGCUGCCaUACAGCU-CGCGa------CGGCu -5'
12356 3' -56.1 NC_003324.1 + 610 0.68 0.544134
Target:  5'- cUCGauccaGCGGUAgaugGUCGAGC--UGCCGAc -3'
miRNA:   3'- aAGC-----UGCCAUa---CAGCUCGcgACGGCU- -5'
12356 3' -56.1 NC_003324.1 + 20848 0.68 0.533484
Target:  5'- -cCGGCGGUGgacaagGAGCGCaugGCCGAc -3'
miRNA:   3'- aaGCUGCCAUacag--CUCGCGa--CGGCU- -5'
12356 3' -56.1 NC_003324.1 + 25588 0.72 0.342814
Target:  5'- cUCGGCGGUGaugacauagucUGUCGGcCGCUGCUGc -3'
miRNA:   3'- aAGCUGCCAU-----------ACAGCUcGCGACGGCu -5'
12356 3' -56.1 NC_003324.1 + 30315 0.72 0.326636
Target:  5'- gUCGGCGGUGgcGUCGcucGGCGCgUGCUGGc -3'
miRNA:   3'- aAGCUGCCAUa-CAGC---UCGCG-ACGGCU- -5'
12356 3' -56.1 NC_003324.1 + 22009 0.74 0.247845
Target:  5'- aUCGACGaGgcgcAUGUCGAGCGCaGCCu- -3'
miRNA:   3'- aAGCUGC-Ca---UACAGCUCGCGaCGGcu -5'
12356 3' -56.1 NC_003324.1 + 26572 1.07 0.001174
Target:  5'- aUUCGACGGUAUGUCGAGCGCUGCCGAg -3'
miRNA:   3'- -AAGCUGCCAUACAGCUCGCGACGGCU- -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.