miRNA display CGI


Results 1 - 19 of 19 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
18136 3' -58.8 NC_004680.1 + 53859 0.66 0.519866
Target:  5'- cAGCUCAUCaccuccacgGGCUGCACCU--GCCUc -3'
miRNA:   3'- -UCGAGUAGg--------UCGGCGUGGGguUGGAc -5'
18136 3' -58.8 NC_004680.1 + 48499 0.66 0.509533
Target:  5'- -aUUCGUCCggggaAGCCGCugCCCggUCg- -3'
miRNA:   3'- ucGAGUAGG-----UCGGCGugGGGuuGGac -5'
18136 3' -58.8 NC_004680.1 + 3689 0.66 0.499286
Target:  5'- cAGUUCAgcggUCgCAGCCGCAUaCUCAGCgUGa -3'
miRNA:   3'- -UCGAGU----AG-GUCGGCGUG-GGGUUGgAC- -5'
18136 3' -58.8 NC_004680.1 + 55980 0.67 0.459277
Target:  5'- cGCUgc-CCAGCCGCACCgaAACCg- -3'
miRNA:   3'- uCGAguaGGUCGGCGUGGggUUGGac -5'
18136 3' -58.8 NC_004680.1 + 12644 0.67 0.449541
Target:  5'- cGC-CGUCCAuGCCG-AUCCCAccggaGCCUGa -3'
miRNA:   3'- uCGaGUAGGU-CGGCgUGGGGU-----UGGAC- -5'
18136 3' -58.8 NC_004680.1 + 13209 0.67 0.439921
Target:  5'- gGGCUCAUCCcGCCGUggaaACacaUCGACCa- -3'
miRNA:   3'- -UCGAGUAGGuCGGCG----UGg--GGUUGGac -5'
18136 3' -58.8 NC_004680.1 + 50642 0.67 0.439921
Target:  5'- gAGCUU-UCCGGggagCGCAUCCCAguccGCCUGg -3'
miRNA:   3'- -UCGAGuAGGUCg---GCGUGGGGU----UGGAC- -5'
18136 3' -58.8 NC_004680.1 + 52954 0.67 0.438965
Target:  5'- -uCUCGUCCgccgcgaGGCUGUACCUgggCAGCCUGg -3'
miRNA:   3'- ucGAGUAGG-------UCGGCGUGGG---GUUGGAC- -5'
18136 3' -58.8 NC_004680.1 + 47917 0.68 0.421038
Target:  5'- cGCcgCAgCCAGCCgGCGCUCCAACUc- -3'
miRNA:   3'- uCGa-GUaGGUCGG-CGUGGGGUUGGac -5'
18136 3' -58.8 NC_004680.1 + 6743 0.68 0.421038
Target:  5'- ---aCAUCCGGcCCGUACCCCAcacggucuuucACCUu -3'
miRNA:   3'- ucgaGUAGGUC-GGCGUGGGGU-----------UGGAc -5'
18136 3' -58.8 NC_004680.1 + 44492 0.68 0.411781
Target:  5'- -aCUCcccgCCAGCCGCcaACCCCAGCa-- -3'
miRNA:   3'- ucGAGua--GGUCGGCG--UGGGGUUGgac -5'
18136 3' -58.8 NC_004680.1 + 48674 0.68 0.384784
Target:  5'- uGCUCGcgUCGGCCGCAaguaCCUAuACCUGc -3'
miRNA:   3'- uCGAGUa-GGUCGGCGUg---GGGU-UGGAC- -5'
18136 3' -58.8 NC_004680.1 + 17863 0.69 0.350657
Target:  5'- uGUUCA-CCAaCUGCGCCgCAGCCUGa -3'
miRNA:   3'- uCGAGUaGGUcGGCGUGGgGUUGGAC- -5'
18136 3' -58.8 NC_004680.1 + 9661 0.69 0.349832
Target:  5'- cGCgCggCCAGCagccgaaccgccaCGCGCCCCAGCCg- -3'
miRNA:   3'- uCGaGuaGGUCG-------------GCGUGGGGUUGGac -5'
18136 3' -58.8 NC_004680.1 + 23817 0.7 0.318738
Target:  5'- cGGCcuuaUCGUCCAGCCccucauGCGCCCCuucgauACCg- -3'
miRNA:   3'- -UCG----AGUAGGUCGG------CGUGGGGu-----UGGac -5'
18136 3' -58.8 NC_004680.1 + 42666 0.7 0.311107
Target:  5'- cGGCUgAUgCCGuGCCGCACCCUcACCc- -3'
miRNA:   3'- -UCGAgUA-GGU-CGGCGUGGGGuUGGac -5'
18136 3' -58.8 NC_004680.1 + 49798 0.7 0.301395
Target:  5'- gGGUUCGgaccaagcgcguacUUCAGCCGCACgCUCAGCCa- -3'
miRNA:   3'- -UCGAGU--------------AGGUCGGCGUG-GGGUUGGac -5'
18136 3' -58.8 NC_004680.1 + 51546 0.77 0.108396
Target:  5'- gGGC-CAguUCCAGCCGCAUCCaCAGCCg- -3'
miRNA:   3'- -UCGaGU--AGGUCGGCGUGGG-GUUGGac -5'
18136 3' -58.8 NC_004680.1 + 41134 1.08 0.000479
Target:  5'- aAGCUCAUCCAGCCGCACCCCAACCUGa -3'
miRNA:   3'- -UCGAGUAGGUCGGCGUGGGGUUGGAC- -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.