miRNA display CGI


Results 1 - 20 of 23 are showing below:
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Acc. No. Name Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 105225 0.66 0.996435
Target:  5'- cAGCGCUguGGCG-CcUGGGGUCGc -3'
miRNA:   3'- -UCGCGG--UCGUuGuACCCUAGU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 50062 0.66 0.996435
Target:  5'- aGGCGuCCGGUAcugGCGUGGGcgCc -3'
miRNA:   3'- -UCGC-GGUCGU---UGUACCCuaGu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 37471 0.66 0.99529
Target:  5'- uAGCGCUcugcccgggcaccuuGGCGGauuUGGGAUCAa -3'
miRNA:   3'- -UCGCGG---------------UCGUUgu-ACCCUAGU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 133751 0.66 0.994961
Target:  5'- uGUGCCAGacaGGCGUucGGGAUCc -3'
miRNA:   3'- uCGCGGUCg--UUGUA--CCCUAGu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 12500 0.66 0.994961
Target:  5'- aGGC-CCAGUAGCAUGcGGGUg- -3'
miRNA:   3'- -UCGcGGUCGUUGUAC-CCUAgu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 10818 0.66 0.994058
Target:  5'- --gGCCAGCAGCGUGG--UCAc -3'
miRNA:   3'- ucgCGGUCGUUGUACCcuAGU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 109146 0.67 0.991861
Target:  5'- cGCagGCCGGgcGCGUGGGGUCGa -3'
miRNA:   3'- uCG--CGGUCguUGUACCCUAGU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 94258 0.67 0.991861
Target:  5'- cGUGCCAGUGGgGUuGGGGUCc -3'
miRNA:   3'- uCGCGGUCGUUgUA-CCCUAGu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 91468 0.67 0.989065
Target:  5'- cAGCGCUGGCAagaACAucUGGGGUg- -3'
miRNA:   3'- -UCGCGGUCGU---UGU--ACCCUAgu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 115614 0.68 0.985572
Target:  5'- uGGUGUCuguaaucuGGCAGCAUGGGGUgGg -3'
miRNA:   3'- -UCGCGG--------UCGUUGUACCCUAgU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 33943 0.68 0.985572
Target:  5'- aGGCGCCAGCGAgGcgcgcuccUGGGGg-- -3'
miRNA:   3'- -UCGCGGUCGUUgU--------ACCCUagu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 65528 0.68 0.978813
Target:  5'- cGUGCCuuGCAuagucuGCGUGGGGUCu -3'
miRNA:   3'- uCGCGGu-CGU------UGUACCCUAGu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 132672 0.68 0.978813
Target:  5'- cAGCGCCAGCcaggggGACGggGGGGUgGa -3'
miRNA:   3'- -UCGCGGUCG------UUGUa-CCCUAgU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 40977 0.68 0.976108
Target:  5'- gGGCGCCAGCu-CGUGGcGAa-- -3'
miRNA:   3'- -UCGCGGUCGuuGUACC-CUagu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 24214 0.69 0.973158
Target:  5'- cGCGCgCGGCGGCAcgUGGGAc-- -3'
miRNA:   3'- uCGCG-GUCGUUGU--ACCCUagu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 55242 0.69 0.958717
Target:  5'- cAGCaGCCauAGCAACGgaagGGGGUCGu -3'
miRNA:   3'- -UCG-CGG--UCGUUGUa---CCCUAGU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 128058 0.71 0.922191
Target:  5'- cGGUGCCAGCAACc-GGGAgCAc -3'
miRNA:   3'- -UCGCGGUCGUUGuaCCCUaGU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 23189 0.73 0.844375
Target:  5'- gAGCGcCCGGguGCAcGGGGUCAc -3'
miRNA:   3'- -UCGC-GGUCguUGUaCCCUAGU- -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 + 113441 0.73 0.844375
Target:  5'- uGCGCCAGCGACG-GGcGGUCc -3'
miRNA:   3'- uCGCGGUCGUUGUaCC-CUAGu -5'
MIMAT0002187 kshv-miR-K12-7 -47.3 NC_003409.1 - 119820 0.73 0.844375
Target:  5'- gAGCGcCCGGguGCAcGGGGUCAc -3'
miRNA:   3'- -UCGC-GGUCguUGUaCCCUAGU- -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.