miRNA display CGI


Results 1 - 20 of 27 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
22259 3' -59.1 NC_005045.1 + 16823 1.1 0.000291
Target:  5'- uCCAGAGCGACCACACCCAGCCCUCGAu -3'
miRNA:   3'- -GGUCUCGCUGGUGUGGGUCGGGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 5054 0.77 0.088298
Target:  5'- cCCAGGGCGAguaaggcCCGCacguaauagGCCCGGCCCUCc- -3'
miRNA:   3'- -GGUCUCGCU-------GGUG---------UGGGUCGGGAGcu -5'
22259 3' -59.1 NC_005045.1 + 25019 0.72 0.196268
Target:  5'- aCAGGGCGAUCugGCGCUCGGaCuCCUCGGc -3'
miRNA:   3'- gGUCUCGCUGG--UGUGGGUC-G-GGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 27695 0.72 0.201519
Target:  5'- cCCAGGGCGAUCu--CCUGGCCCUUc- -3'
miRNA:   3'- -GGUCUCGCUGGuguGGGUCGGGAGcu -5'
22259 3' -59.1 NC_005045.1 + 10731 0.72 0.201519
Target:  5'- gCCuGAGCGAggagCACAUCCAGCuCCUCa- -3'
miRNA:   3'- -GGuCUCGCUg---GUGUGGGUCG-GGAGcu -5'
22259 3' -59.1 NC_005045.1 + 32658 0.71 0.206891
Target:  5'- gCAGGGCGGCgaCACugCCAGCUCUg-- -3'
miRNA:   3'- gGUCUCGCUG--GUGugGGUCGGGAgcu -5'
22259 3' -59.1 NC_005045.1 + 6824 0.7 0.260986
Target:  5'- -gGGAgGCGugCugGCCCucgguGCCUUCGAc -3'
miRNA:   3'- ggUCU-CGCugGugUGGGu----CGGGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 11586 0.69 0.288512
Target:  5'- aUCAGAcGUGGCUGUACCCGGCaCUCGAc -3'
miRNA:   3'- -GGUCU-CGCUGGUGUGGGUCGgGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 4440 0.69 0.295741
Target:  5'- aCCAGuGUG-CCGCGCUUAG-CCUCGGg -3'
miRNA:   3'- -GGUCuCGCuGGUGUGGGUCgGGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 31724 0.69 0.318269
Target:  5'- aUCGuAGCgGACCaggaACugCCGGCCCUUGAc -3'
miRNA:   3'- -GGUcUCG-CUGG----UGugGGUCGGGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 8614 0.68 0.33399
Target:  5'- -aAGGGCcuCCACGCCgGGgCCUCGGu -3'
miRNA:   3'- ggUCUCGcuGGUGUGGgUCgGGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 17431 0.68 0.350274
Target:  5'- gCCGGucuGCGuauGCACCCAGCCUUCc- -3'
miRNA:   3'- -GGUCu--CGCuggUGUGGGUCGGGAGcu -5'
22259 3' -59.1 NC_005045.1 + 11095 0.68 0.367113
Target:  5'- aCCAGGGCGcagauACUAUcccCCCAGCCCaaGGg -3'
miRNA:   3'- -GGUCUCGC-----UGGUGu--GGGUCGGGagCU- -5'
22259 3' -59.1 NC_005045.1 + 6740 0.67 0.393398
Target:  5'- gCCAGAG-GaACCACugCCaccAGUUCUCGGc -3'
miRNA:   3'- -GGUCUCgC-UGGUGugGG---UCGGGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 29055 0.67 0.402427
Target:  5'- gCCAGcgaucuGCuGACCgGCACCCAggauGCCgUCGAg -3'
miRNA:   3'- -GGUCu-----CG-CUGG-UGUGGGU----CGGgAGCU- -5'
22259 3' -59.1 NC_005045.1 + 2912 0.67 0.402427
Target:  5'- gUCGGcugcguugcAGCGGCC-CGCCgGGUCCUUGGg -3'
miRNA:   3'- -GGUC---------UCGCUGGuGUGGgUCGGGAGCU- -5'
22259 3' -59.1 NC_005045.1 + 12116 0.67 0.402427
Target:  5'- uCCAuc-CGGCCaucuucguacgGCACCCGGCCCUUGu -3'
miRNA:   3'- -GGUcucGCUGG-----------UGUGGGUCGGGAGCu -5'
22259 3' -59.1 NC_005045.1 + 12433 0.67 0.411587
Target:  5'- uUCAGcaccAGCGGCgACGCCCucaaGGCUCUgGAg -3'
miRNA:   3'- -GGUC----UCGCUGgUGUGGG----UCGGGAgCU- -5'
22259 3' -59.1 NC_005045.1 + 37743 0.67 0.420874
Target:  5'- -aGGAGUGG-CACGCCgAGCUaCUCGAa -3'
miRNA:   3'- ggUCUCGCUgGUGUGGgUCGG-GAGCU- -5'
22259 3' -59.1 NC_005045.1 + 33334 0.66 0.430286
Target:  5'- aCCGGuucuucAGUGAggccgaccuCCugGCCCAGCCCggaGAg -3'
miRNA:   3'- -GGUC------UCGCU---------GGugUGGGUCGGGag-CU- -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.