miRNA display CGI


Results 1 - 20 of 50 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
27039 3' -53.4 NC_005832.1 + 15219 1.11 0.002777
Target:  5'- aCCAUGACCACCGGACAGAGAAAGGCGu -3'
miRNA:   3'- -GGUACUGGUGGCCUGUCUCUUUCCGC- -5'
27039 3' -53.4 NC_005832.1 + 98345 0.77 0.422328
Target:  5'- gCCAUGAUCACCagGGACAgGAGGAcGGCc -3'
miRNA:   3'- -GGUACUGGUGG--CCUGU-CUCUUuCCGc -5'
27039 3' -53.4 NC_005832.1 + 26461 0.74 0.539101
Target:  5'- cCCGgcgaGGCCACCGGGCAGAGGuucGGa- -3'
miRNA:   3'- -GGUa---CUGGUGGCCUGUCUCUuu-CCgc -5'
27039 3' -53.4 NC_005832.1 + 75906 0.73 0.640644
Target:  5'- gUCAgGGCCACCaGGGCccuggccaaggagaGGGGAGAGGCa -3'
miRNA:   3'- -GGUaCUGGUGG-CCUG--------------UCUCUUUCCGc -5'
27039 3' -53.4 NC_005832.1 + 10006 0.72 0.685882
Target:  5'- gCCGUGGCUcacgugagGCUGGACGGc-GGAGGCGa -3'
miRNA:   3'- -GGUACUGG--------UGGCCUGUCucUUUCCGC- -5'
27039 3' -53.4 NC_005832.1 + 6517 0.72 0.685882
Target:  5'- uCUGUGGCCcugugcgggGCCagGGACAGGGGGcAGGCGg -3'
miRNA:   3'- -GGUACUGG---------UGG--CCUGUCUCUU-UCCGC- -5'
27039 3' -53.4 NC_005832.1 + 94190 0.71 0.706669
Target:  5'- cCCGUGAaaGCCGGGCu--GGGAGGCc -3'
miRNA:   3'- -GGUACUggUGGCCUGucuCUUUCCGc -5'
27039 3' -53.4 NC_005832.1 + 17047 0.71 0.727188
Target:  5'- aUCGUGGCCGCC-GACcucGAGGGAGGUc -3'
miRNA:   3'- -GGUACUGGUGGcCUGu--CUCUUUCCGc -5'
27039 3' -53.4 NC_005832.1 + 50729 0.71 0.727188
Target:  5'- -aAUGGCgACgGGAUAGAGAggcuGAGGCu -3'
miRNA:   3'- ggUACUGgUGgCCUGUCUCU----UUCCGc -5'
27039 3' -53.4 NC_005832.1 + 4969 0.7 0.757285
Target:  5'- uCC-UGGCCACCuuGGACAGGGuAGGGa- -3'
miRNA:   3'- -GGuACUGGUGG--CCUGUCUCuUUCCgc -5'
27039 3' -53.4 NC_005832.1 + 8228 0.7 0.767095
Target:  5'- cCCGUGAgaGCCGGuACGGGGuacauGGGGCu -3'
miRNA:   3'- -GGUACUggUGGCC-UGUCUCu----UUCCGc -5'
27039 3' -53.4 NC_005832.1 + 67946 0.7 0.776777
Target:  5'- -aGUGGCCAgaguaCGGGCAGAGGAgcgacccugaGGGCu -3'
miRNA:   3'- ggUACUGGUg----GCCUGUCUCUU----------UCCGc -5'
27039 3' -53.4 NC_005832.1 + 32268 0.7 0.776777
Target:  5'- gCCAUGAuguuguCUGCCGuGguGAGggGGGCGa -3'
miRNA:   3'- -GGUACU------GGUGGCcUguCUCuuUCCGC- -5'
27039 3' -53.4 NC_005832.1 + 71677 0.7 0.786321
Target:  5'- aUCAUGACUGCCacgacugcaGACAGGGccacGAGGGCGg -3'
miRNA:   3'- -GGUACUGGUGGc--------CUGUCUC----UUUCCGC- -5'
27039 3' -53.4 NC_005832.1 + 101858 0.7 0.795717
Target:  5'- aUCAaGGCCGCCGGAgCAGAGGAGauGuGCu -3'
miRNA:   3'- -GGUaCUGGUGGCCU-GUCUCUUU--C-CGc -5'
27039 3' -53.4 NC_005832.1 + 10332 0.7 0.804956
Target:  5'- cCCAUGACagGCUcaaGGcCAgGGGAGAGGCGg -3'
miRNA:   3'- -GGUACUGg-UGG---CCuGU-CUCUUUCCGC- -5'
27039 3' -53.4 NC_005832.1 + 32714 0.7 0.804956
Target:  5'- aCCGU-ACCACCGccucgucCGGGGAGAGGCu -3'
miRNA:   3'- -GGUAcUGGUGGCcu-----GUCUCUUUCCGc -5'
27039 3' -53.4 NC_005832.1 + 31530 0.69 0.814028
Target:  5'- cCCAgUGcGCCACCGcuCAGuguAGAGAGGCGg -3'
miRNA:   3'- -GGU-AC-UGGUGGCcuGUC---UCUUUCCGC- -5'
27039 3' -53.4 NC_005832.1 + 1510 0.69 0.814028
Target:  5'- gCgGUGAUCGacCCGGACcacggcGAGAGGGGCa -3'
miRNA:   3'- -GgUACUGGU--GGCCUGu-----CUCUUUCCGc -5'
27039 3' -53.4 NC_005832.1 + 96866 0.69 0.822924
Target:  5'- gCGUGACCagGCUGGGCAGGuccAucGGCGa -3'
miRNA:   3'- gGUACUGG--UGGCCUGUCUc--UuuCCGC- -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.