miRNA display CGI


Results 1 - 16 of 16 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
1393 3' -56.4 NC_001335.1 + 13085 0.66 0.619554
Target:  5'- -aC-CGCCAGAUCACggUCGGCGGu- -3'
miRNA:   3'- aaGcGCGGUCUAGUGgaGGUCGCUuc -5'
1393 3' -56.4 NC_001335.1 + 28458 0.66 0.61622
Target:  5'- -aCGcCGCCGGugcgUACCUCCugaucgagggggagGGCGAGGu -3'
miRNA:   3'- aaGC-GCGGUCua--GUGGAGG--------------UCGCUUC- -5'
1393 3' -56.4 NC_001335.1 + 2723 0.66 0.597359
Target:  5'- -gCGUGCCcacuGuUCACCUCCugGGUGGAGc -3'
miRNA:   3'- aaGCGCGGu---CuAGUGGAGG--UCGCUUC- -5'
1393 3' -56.4 NC_001335.1 + 40655 0.66 0.597359
Target:  5'- -aCGCggagagGCCcaGGAUCGCCgaUCCGGCGAu- -3'
miRNA:   3'- aaGCG------CGG--UCUAGUGG--AGGUCGCUuc -5'
1393 3' -56.4 NC_001335.1 + 10023 0.67 0.564315
Target:  5'- gUCGCaGCCAc-UCACCUaCAGCGAGa -3'
miRNA:   3'- aAGCG-CGGUcuAGUGGAgGUCGCUUc -5'
1393 3' -56.4 NC_001335.1 + 49224 0.67 0.553402
Target:  5'- -aCGCGCuCGGGUUGCCgcgCCAgucgucGCGGAGc -3'
miRNA:   3'- aaGCGCG-GUCUAGUGGa--GGU------CGCUUC- -5'
1393 3' -56.4 NC_001335.1 + 49855 0.67 0.510457
Target:  5'- --aGCGCCAGGUUgucgaGCCUCU-GCGAGu -3'
miRNA:   3'- aagCGCGGUCUAG-----UGGAGGuCGCUUc -5'
1393 3' -56.4 NC_001335.1 + 29434 0.68 0.489505
Target:  5'- cUCGCGCaugucGAUCACCggcaucCCGGCGcAGa -3'
miRNA:   3'- aAGCGCGgu---CUAGUGGa-----GGUCGCuUC- -5'
1393 3' -56.4 NC_001335.1 + 40344 0.68 0.479181
Target:  5'- gUCGgGCaGGAUCGCCUgCGGCuuGAAGu -3'
miRNA:   3'- aAGCgCGgUCUAGUGGAgGUCG--CUUC- -5'
1393 3' -56.4 NC_001335.1 + 3764 0.68 0.468965
Target:  5'- --aGCGCCgcgAGGUCACCUUgAGCuuGAAGu -3'
miRNA:   3'- aagCGCGG---UCUAGUGGAGgUCG--CUUC- -5'
1393 3' -56.4 NC_001335.1 + 3434 0.68 0.458861
Target:  5'- -aCGUGCCuccGGUCGCC-CCGGUGAc- -3'
miRNA:   3'- aaGCGCGGu--CUAGUGGaGGUCGCUuc -5'
1393 3' -56.4 NC_001335.1 + 9486 0.68 0.448874
Target:  5'- --aGCgGCCcuGAUCGCCUC-AGCGGAGg -3'
miRNA:   3'- aagCG-CGGu-CUAGUGGAGgUCGCUUC- -5'
1393 3' -56.4 NC_001335.1 + 21961 0.69 0.429269
Target:  5'- gUCaGCGCC-GAUgGCCUCUAGUGGGu -3'
miRNA:   3'- aAG-CGCGGuCUAgUGGAGGUCGCUUc -5'
1393 3' -56.4 NC_001335.1 + 7685 0.69 0.410177
Target:  5'- aUCGgcaGCCAGGuggagUCGCCUCgGGCGAu- -3'
miRNA:   3'- aAGCg--CGGUCU-----AGUGGAGgUCGCUuc -5'
1393 3' -56.4 NC_001335.1 + 24548 0.72 0.284991
Target:  5'- -gUGCGCuCGGAUCAUCUCC-GCGAc- -3'
miRNA:   3'- aaGCGCG-GUCUAGUGGAGGuCGCUuc -5'
1393 3' -56.4 NC_001335.1 + 36240 1.06 0.001042
Target:  5'- gUUCGCGCCAGAUCACCUCCAGCGAAGu -3'
miRNA:   3'- -AAGCGCGGUCUAGUGGAGGUCGCUUC- -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.