miRNA display CGI


Results 1 - 20 of 30 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
22402 3' -52.6 NC_005056.1 + 18906 0.65 0.745477
Target:  5'- uUCGCCaGugccauauucagcGUGACCGGCGuUGCCgccugaauagccgCAGCa -3'
miRNA:   3'- -AGUGGaC-------------UAUUGGCCGCuAUGG-------------GUCG- -5'
22402 3' -52.6 NC_005056.1 + 9659 0.65 0.745477
Target:  5'- gCACCUGuucccccaCGGaCGGUGCCCAccauguGCg -3'
miRNA:   3'- aGUGGACuauug---GCC-GCUAUGGGU------CG- -5'
22402 3' -52.6 NC_005056.1 + 2128 0.66 0.736635
Target:  5'- ---aCUGuuUAACCGGgGAcGCgCCAGCg -3'
miRNA:   3'- agugGACu-AUUGGCCgCUaUG-GGUCG- -5'
22402 3' -52.6 NC_005056.1 + 4167 0.66 0.736635
Target:  5'- uUCACCguugAACCGuCGGUcACCCAGa -3'
miRNA:   3'- -AGUGGacuaUUGGCcGCUA-UGGGUCg -5'
22402 3' -52.6 NC_005056.1 + 10249 0.66 0.736635
Target:  5'- gUCGCCUGuu-ACaUGGCGGUgcugaaaugggaACCCcGCg -3'
miRNA:   3'- -AGUGGACuauUG-GCCGCUA------------UGGGuCG- -5'
22402 3' -52.6 NC_005056.1 + 8080 0.66 0.725479
Target:  5'- gUCugCUGuucACUGGCGAcguuguucacccUGUCCAGCg -3'
miRNA:   3'- -AGugGACuauUGGCCGCU------------AUGGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 9670 0.66 0.714219
Target:  5'- -uGCCgggGAUuuauuCCGGUGAUaACCCcGCg -3'
miRNA:   3'- agUGGa--CUAuu---GGCCGCUA-UGGGuCG- -5'
22402 3' -52.6 NC_005056.1 + 20342 0.67 0.679952
Target:  5'- -aGCCUGA---CCGGUGGUACUgcgccggggacaCAGCu -3'
miRNA:   3'- agUGGACUauuGGCCGCUAUGG------------GUCG- -5'
22402 3' -52.6 NC_005056.1 + 4312 0.67 0.668411
Target:  5'- cCACCgacaccGCCGGUGGcACCgAGCg -3'
miRNA:   3'- aGUGGacuau-UGGCCGCUaUGGgUCG- -5'
22402 3' -52.6 NC_005056.1 + 7603 0.67 0.649871
Target:  5'- gCACCUGGgcgauuCUGGCGAcgguuaucuguguggUugCCGGUg -3'
miRNA:   3'- aGUGGACUauu---GGCCGCU---------------AugGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 18331 0.67 0.645227
Target:  5'- uUCGCCUGAgcACgGGUcgGAcGCUCGGUg -3'
miRNA:   3'- -AGUGGACUauUGgCCG--CUaUGGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 19759 0.67 0.633609
Target:  5'- cCGCgaUGAUGgcauugauGCCGGUGAUAaCCGGCc -3'
miRNA:   3'- aGUGg-ACUAU--------UGGCCGCUAUgGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 18620 0.67 0.633609
Target:  5'- -----cGAUGGCCGGUguuaaguugcuGAUGCCCGGUu -3'
miRNA:   3'- aguggaCUAUUGGCCG-----------CUAUGGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 20429 0.69 0.552854
Target:  5'- gCAuCCUG-UAACUGGCGGUcaagcugugucCCCGGCg -3'
miRNA:   3'- aGU-GGACuAUUGGCCGCUAu----------GGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 1684 0.69 0.552854
Target:  5'- cCACCggccaccACCGGCGGUGCC-AGUa -3'
miRNA:   3'- aGUGGacuau--UGGCCGCUAUGGgUCG- -5'
22402 3' -52.6 NC_005056.1 + 5575 0.69 0.538137
Target:  5'- cCACCUccucGGUGAacauguaCGGCGGggugcggcgguguuUACCCGGCa -3'
miRNA:   3'- aGUGGA----CUAUUg------GCCGCU--------------AUGGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 10204 0.69 0.519101
Target:  5'- aUCACCcgUGAgccGACCGGCG-UGCgCAGg -3'
miRNA:   3'- -AGUGG--ACUa--UUGGCCGCuAUGgGUCg -5'
22402 3' -52.6 NC_005056.1 + 4882 0.7 0.493785
Target:  5'- gCAUC-GGUAaccuGCCGGCGGUAcgcgucccguacuuCCCGGCg -3'
miRNA:   3'- aGUGGaCUAU----UGGCCGCUAU--------------GGGUCG- -5'
22402 3' -52.6 NC_005056.1 + 5422 0.7 0.486191
Target:  5'- gCGUCUGGauACCGGCGAUAUugCCGGUg -3'
miRNA:   3'- aGUGGACUauUGGCCGCUAUG--GGUCG- -5'
22402 3' -52.6 NC_005056.1 + 22011 0.7 0.475442
Target:  5'- -aGCCUGAUacuuuGACCGGCGuuuCCguGUa -3'
miRNA:   3'- agUGGACUA-----UUGGCCGCuauGGguCG- -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.