miRNA display CGI


Results 1 - 20 of 24 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
30436 5' -58 NC_006548.1 + 28892 0.66 0.488571
Target:  5'- -cCACCGGCcaaaccGUcgAGGCGGccGGcGCCg -3'
miRNA:   3'- gaGUGGCCGu-----CGuaUCCGCCa-CC-UGG- -5'
30436 5' -58 NC_006548.1 + 21798 0.66 0.478284
Target:  5'- -gCACCGGC-GCGUccAGGCcGUGGuCUu -3'
miRNA:   3'- gaGUGGCCGuCGUA--UCCGcCACCuGG- -5'
30436 5' -58 NC_006548.1 + 29159 0.66 0.448088
Target:  5'- --gACCGGCcuGC-UGGGCGGccUGGAUa -3'
miRNA:   3'- gagUGGCCGu-CGuAUCCGCC--ACCUGg -5'
30436 5' -58 NC_006548.1 + 36697 0.66 0.448088
Target:  5'- -gCGCCGGCcuCAUGcGGCGcUGGcACCg -3'
miRNA:   3'- gaGUGGCCGucGUAU-CCGCcACC-UGG- -5'
30436 5' -58 NC_006548.1 + 16973 0.67 0.428555
Target:  5'- -cCGCCGGCAuGC--AGGCGGagcugcUGGaaGCCg -3'
miRNA:   3'- gaGUGGCCGU-CGuaUCCGCC------ACC--UGG- -5'
30436 5' -58 NC_006548.1 + 28067 0.67 0.400222
Target:  5'- cCUCACagcaGGCGGCu--GGCGGccUGcaGGCCg -3'
miRNA:   3'- -GAGUGg---CCGUCGuauCCGCC--AC--CUGG- -5'
30436 5' -58 NC_006548.1 + 36279 0.67 0.400222
Target:  5'- -cCGCgGGguGCGgucGGGCGG-GGuCCa -3'
miRNA:   3'- gaGUGgCCguCGUa--UCCGCCaCCuGG- -5'
30436 5' -58 NC_006548.1 + 37389 0.67 0.381113
Target:  5'- gUCACCGGCAGCGgcucaaaucAGaaccgccuagcucGCuGGUGGGCa -3'
miRNA:   3'- gAGUGGCCGUCGUa--------UC-------------CG-CCACCUGg -5'
30436 5' -58 NC_006548.1 + 8281 0.68 0.373113
Target:  5'- --aGCCGGCAGCGacccGGCGGUuGAUUu -3'
miRNA:   3'- gagUGGCCGUCGUau--CCGCCAcCUGG- -5'
30436 5' -58 NC_006548.1 + 36830 0.68 0.347279
Target:  5'- cCUgGCCGGguGCu--GGUGuGUGGugUg -3'
miRNA:   3'- -GAgUGGCCguCGuauCCGC-CACCugG- -5'
30436 5' -58 NC_006548.1 + 15595 0.69 0.322749
Target:  5'- --aACUGGCAGCAgcccgaGGGCGGccGACUg -3'
miRNA:   3'- gagUGGCCGUCGUa-----UCCGCCacCUGG- -5'
30436 5' -58 NC_006548.1 + 15800 0.69 0.314865
Target:  5'- -cCACCGGCcuggguaucGGC-UGGGCGGacgacgcucaGGACCa -3'
miRNA:   3'- gaGUGGCCG---------UCGuAUCCGCCa---------CCUGG- -5'
30436 5' -58 NC_006548.1 + 20852 0.7 0.28479
Target:  5'- uCUgGCgCGGCAGC--AGGCGGccGGCCu -3'
miRNA:   3'- -GAgUG-GCCGUCGuaUCCGCCacCUGG- -5'
30436 5' -58 NC_006548.1 + 23358 0.71 0.225492
Target:  5'- -cCACUGGCcaAGCGUuacgGGGUugucaccgGGUGGACCa -3'
miRNA:   3'- gaGUGGCCG--UCGUA----UCCG--------CCACCUGG- -5'
30436 5' -58 NC_006548.1 + 5014 0.72 0.208187
Target:  5'- aUCACUGG-AGCAUucucgguguucAGGCGGUGcACCa -3'
miRNA:   3'- gAGUGGCCgUCGUA-----------UCCGCCACcUGG- -5'
30436 5' -58 NC_006548.1 + 4613 0.73 0.172228
Target:  5'- --gGCUGGCAaGCAguuguccgAGGUGGUGGACg -3'
miRNA:   3'- gagUGGCCGU-CGUa-------UCCGCCACCUGg -5'
30436 5' -58 NC_006548.1 + 845 0.73 0.163021
Target:  5'- gCUUGCCGGCGGCucgcuugcUGGGCuGUGGuuGCCa -3'
miRNA:   3'- -GAGUGGCCGUCGu-------AUCCGcCACC--UGG- -5'
30436 5' -58 NC_006548.1 + 27240 0.74 0.150041
Target:  5'- -aCGCuCGGCauugugauaGGCGUucauGGCGGUGGACUg -3'
miRNA:   3'- gaGUG-GCCG---------UCGUAu---CCGCCACCUGG- -5'
30436 5' -58 NC_006548.1 + 37546 0.74 0.138008
Target:  5'- -gCGCCGGCGGU-UGGGCuGaGUGGACUg -3'
miRNA:   3'- gaGUGGCCGUCGuAUCCG-C-CACCUGG- -5'
30436 5' -58 NC_006548.1 + 22003 0.74 0.134198
Target:  5'- aUCACCGGCAGC--GGGUugcuGGUcGGAUCa -3'
miRNA:   3'- gAGUGGCCGUCGuaUCCG----CCA-CCUGG- -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.