miRNA display CGI


Results 1 - 20 of 64 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
30422 3' -53.1 NC_006548.1 + 19685 0.66 0.702964
Target:  5'- uUCAGgCGCGUucGCGGAGCgCGCGcugCAGa -3'
miRNA:   3'- -AGUCgGCGUA--CGUCUUG-GCGUa--GUUg -5'
30422 3' -53.1 NC_006548.1 + 36910 0.66 0.702964
Target:  5'- cCGGCUGC-UGCAG-GCCGU--CAACu -3'
miRNA:   3'- aGUCGGCGuACGUCuUGGCGuaGUUG- -5'
30422 3' -53.1 NC_006548.1 + 22484 0.66 0.680001
Target:  5'- gCGGCCGCccaGUGaGGAuuaaGCCGCGaCGGCg -3'
miRNA:   3'- aGUCGGCG---UACgUCU----UGGCGUaGUUG- -5'
30422 3' -53.1 NC_006548.1 + 33511 0.66 0.680001
Target:  5'- aUCAGCC-C-UGaAGAACCGCGcCAGCc -3'
miRNA:   3'- -AGUCGGcGuACgUCUUGGCGUaGUUG- -5'
30422 3' -53.1 NC_006548.1 + 20947 0.66 0.680001
Target:  5'- cUCGGCCGCcgGCuuuguGAccugGCCGUcgcccUCGGCg -3'
miRNA:   3'- -AGUCGGCGuaCGu----CU----UGGCGu----AGUUG- -5'
30422 3' -53.1 NC_006548.1 + 29134 0.66 0.680001
Target:  5'- -uGGCCGCGcgGCAGcaacugcuaGACCuGCAUCGGu -3'
miRNA:   3'- agUCGGCGUa-CGUC---------UUGG-CGUAGUUg -5'
30422 3' -53.1 NC_006548.1 + 29101 0.66 0.668436
Target:  5'- -aGGCCGCccaGCAG-GCCGgucuCGUCAGCg -3'
miRNA:   3'- agUCGGCGua-CGUCuUGGC----GUAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 35747 0.67 0.656834
Target:  5'- aUCAGCCGCAgcgucCAGAGuCCG-GUCGAg -3'
miRNA:   3'- -AGUCGGCGUac---GUCUU-GGCgUAGUUg -5'
30422 3' -53.1 NC_006548.1 + 35945 0.67 0.656834
Target:  5'- aUCAcGCCGCcgGCcgcgcGGAUCGCGcCGGCa -3'
miRNA:   3'- -AGU-CGGCGuaCGu----CUUGGCGUaGUUG- -5'
30422 3' -53.1 NC_006548.1 + 28095 0.67 0.656834
Target:  5'- -aGGCCuCcUGCAGGGCCGCGcCGAa -3'
miRNA:   3'- agUCGGcGuACGUCUUGGCGUaGUUg -5'
30422 3' -53.1 NC_006548.1 + 34352 0.67 0.645205
Target:  5'- gUAGCCGCc-GCGGAACCagGCGUUGGg -3'
miRNA:   3'- aGUCGGCGuaCGUCUUGG--CGUAGUUg -5'
30422 3' -53.1 NC_006548.1 + 12586 0.67 0.633564
Target:  5'- cUCGGCCGCcaacuuccGCgAGAACCGCAa---- -3'
miRNA:   3'- -AGUCGGCGua------CG-UCUUGGCGUaguug -5'
30422 3' -53.1 NC_006548.1 + 20792 0.67 0.633564
Target:  5'- cCGGCCGCcUGCu--GCCGCGcCAGa -3'
miRNA:   3'- aGUCGGCGuACGucuUGGCGUaGUUg -5'
30422 3' -53.1 NC_006548.1 + 32437 0.67 0.633564
Target:  5'- --cGCgGCGcUGCAGGAgCGCAUCugGACu -3'
miRNA:   3'- aguCGgCGU-ACGUCUUgGCGUAG--UUG- -5'
30422 3' -53.1 NC_006548.1 + 4241 0.67 0.610287
Target:  5'- cCGGCUGUucauucGUGCGGAagacgcaccacGCCuGUAUCAGCg -3'
miRNA:   3'- aGUCGGCG------UACGUCU-----------UGG-CGUAGUUG- -5'
30422 3' -53.1 NC_006548.1 + 4300 0.67 0.610287
Target:  5'- gUCAGCaCG-GUGCAGAGCgGCAgaugggUAGCu -3'
miRNA:   3'- -AGUCG-GCgUACGUCUUGgCGUa-----GUUG- -5'
30422 3' -53.1 NC_006548.1 + 12999 0.67 0.610287
Target:  5'- --cGCCGCA--CAGcACCGCGcUCAGCg -3'
miRNA:   3'- aguCGGCGUacGUCuUGGCGU-AGUUG- -5'
30422 3' -53.1 NC_006548.1 + 31509 0.67 0.603317
Target:  5'- cCuGCCGCgaucucgacgugcagGUGCAGAuagGCCGCcgUGGCa -3'
miRNA:   3'- aGuCGGCG---------------UACGUCU---UGGCGuaGUUG- -5'
30422 3' -53.1 NC_006548.1 + 1880 0.67 0.598675
Target:  5'- --cGCUGCAgaGCAGAGCUGCgAUgAACa -3'
miRNA:   3'- aguCGGCGUa-CGUCUUGGCG-UAgUUG- -5'
30422 3' -53.1 NC_006548.1 + 30598 0.67 0.598675
Target:  5'- gCGGCCGUugGCgaAGAACCaguaggGCAUCGGCu -3'
miRNA:   3'- aGUCGGCGuaCG--UCUUGG------CGUAGUUG- -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.