miRNA display CGI


Results 1 - 10 of 10 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
12103 3' -53.4 NC_003309.1 + 5179 1.14 0.000716
Target:  5'- cGCUCGAUCGCCAGUUUCGAGGCGAGCu -3'
miRNA:   3'- -CGAGCUAGCGGUCAAAGCUCCGCUCG- -5'
12103 3' -53.4 NC_003309.1 + 1703 0.8 0.163116
Target:  5'- aGCUUGcgCGCCAug-UCGAGcGCGAGCa -3'
miRNA:   3'- -CGAGCuaGCGGUcaaAGCUC-CGCUCG- -5'
12103 3' -53.4 NC_003309.1 + 10397 0.8 0.172325
Target:  5'- aGCUCGAUCGCCcug--CGcuuuGGCGAGCg -3'
miRNA:   3'- -CGAGCUAGCGGucaaaGCu---CCGCUCG- -5'
12103 3' -53.4 NC_003309.1 + 37033 0.69 0.640504
Target:  5'- aGUcgCGAUCGCCaAGgg-CGAGGcCGaAGCg -3'
miRNA:   3'- -CGa-GCUAGCGG-UCaaaGCUCC-GC-UCG- -5'
12103 3' -53.4 NC_003309.1 + 49649 0.69 0.662648
Target:  5'- aGCUCGA-CGCCc---UCGA-GCGGGCa -3'
miRNA:   3'- -CGAGCUaGCGGucaaAGCUcCGCUCG- -5'
12103 3' -53.4 NC_003309.1 + 12586 0.69 0.673682
Target:  5'- cGCUCGAUC-UCGGcgauguacUCG-GGCGAGCc -3'
miRNA:   3'- -CGAGCUAGcGGUCaa------AGCuCCGCUCG- -5'
12103 3' -53.4 NC_003309.1 + 49831 0.68 0.692342
Target:  5'- gGCUCGcUCGCCAGaaucaggaaCGAcacgugcagcgcuuGGCGAGUg -3'
miRNA:   3'- -CGAGCuAGCGGUCaaa------GCU--------------CCGCUCG- -5'
12103 3' -53.4 NC_003309.1 + 22454 0.67 0.778937
Target:  5'- cGCggCGAUCgcacgcuGCCGGcgUCGAGcGCGGcGCg -3'
miRNA:   3'- -CGa-GCUAG-------CGGUCaaAGCUC-CGCU-CG- -5'
12103 3' -53.4 NC_003309.1 + 10866 0.67 0.779942
Target:  5'- cGCUCGcgCGCCug---CGuGGCaAGCg -3'
miRNA:   3'- -CGAGCuaGCGGucaaaGCuCCGcUCG- -5'
12103 3' -53.4 NC_003309.1 + 7830 0.66 0.7997
Target:  5'- --aCGGcCGCCAGUcagCccGGCGAGCg -3'
miRNA:   3'- cgaGCUaGCGGUCAaa-GcuCCGCUCG- -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.