miRNA display CGI


Results 1 - 20 of 23 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
19736 5' -53.2 NC_004687.1 + 117883 0.66 0.96243
Target:  5'- ---cGGC--UGCCUGGUGa--UCCACa -3'
miRNA:   3'- ucuaUCGuuACGGACCACgagAGGUG- -5'
19736 5' -53.2 NC_004687.1 + 77446 0.66 0.96243
Target:  5'- cGGUGcGCAGUGCCcGGaccaGCUCgaccgCCGCc -3'
miRNA:   3'- uCUAU-CGUUACGGaCCa---CGAGa----GGUG- -5'
19736 5' -53.2 NC_004687.1 + 11364 0.66 0.958751
Target:  5'- gGGGUgcugAGCGAUGCCcuugGGUGuCUCgCCGa -3'
miRNA:   3'- -UCUA----UCGUUACGGa---CCAC-GAGaGGUg -5'
19736 5' -53.2 NC_004687.1 + 53508 0.66 0.958751
Target:  5'- aGGAgccccGuCAggGCCUGGUGCUCaaCUACg -3'
miRNA:   3'- -UCUau---C-GUuaCGGACCACGAGa-GGUG- -5'
19736 5' -53.2 NC_004687.1 + 102665 0.66 0.954831
Target:  5'- --uUGGUggUGCC-GGUGCgggcccgCUCCAg -3'
miRNA:   3'- ucuAUCGuuACGGaCCACGa------GAGGUg -5'
19736 5' -53.2 NC_004687.1 + 110387 0.66 0.954831
Target:  5'- cGAUAcCGAcGCC-GGUGCUCaCCGCg -3'
miRNA:   3'- uCUAUcGUUaCGGaCCACGAGaGGUG- -5'
19736 5' -53.2 NC_004687.1 + 90007 0.66 0.946253
Target:  5'- gGGGUGGUgacAAUGUCgagUGGgGCUCUCCGu -3'
miRNA:   3'- -UCUAUCG---UUACGG---ACCaCGAGAGGUg -5'
19736 5' -53.2 NC_004687.1 + 52744 0.67 0.941588
Target:  5'- cGGUGGCGAUGUaaagGGUGCucauuuuuguUCUCCu- -3'
miRNA:   3'- uCUAUCGUUACGga--CCACG----------AGAGGug -5'
19736 5' -53.2 NC_004687.1 + 124725 0.67 0.941588
Target:  5'- ---cAGCAccGCCgUGGaGCUCUCCGg -3'
miRNA:   3'- ucuaUCGUuaCGG-ACCaCGAGAGGUg -5'
19736 5' -53.2 NC_004687.1 + 92577 0.67 0.936668
Target:  5'- -aGUGGCAGgucguuUGCCaUGGUGUUCUCUu- -3'
miRNA:   3'- ucUAUCGUU------ACGG-ACCACGAGAGGug -5'
19736 5' -53.2 NC_004687.1 + 155322 0.67 0.936668
Target:  5'- uGAUGGCGcugGUGgcCCUGGUGCUgagcCUgCCGCc -3'
miRNA:   3'- uCUAUCGU---UAC--GGACCACGA----GA-GGUG- -5'
19736 5' -53.2 NC_004687.1 + 120518 0.67 0.920366
Target:  5'- --uUGGCGAUGCCUGccGUGCgcgCCAUc -3'
miRNA:   3'- ucuAUCGUUACGGAC--CACGagaGGUG- -5'
19736 5' -53.2 NC_004687.1 + 1818 0.68 0.908212
Target:  5'- gAGAUugGGCAuUGCCaGGUGCUgaCgCACg -3'
miRNA:   3'- -UCUA--UCGUuACGGaCCACGAgaG-GUG- -5'
19736 5' -53.2 NC_004687.1 + 108176 0.68 0.895044
Target:  5'- -cGUAGCcg-GUCUGGUGCUCgucCCAg -3'
miRNA:   3'- ucUAUCGuuaCGGACCACGAGa--GGUg -5'
19736 5' -53.2 NC_004687.1 + 9346 0.68 0.880886
Target:  5'- cGGcgGGCuacGUGCCuggcUGGUGCUCgcgCUACu -3'
miRNA:   3'- -UCuaUCGu--UACGG----ACCACGAGa--GGUG- -5'
19736 5' -53.2 NC_004687.1 + 138416 0.69 0.873446
Target:  5'- aGGAcGGC---GCCgUGGUGCUgUCCGCu -3'
miRNA:   3'- -UCUaUCGuuaCGG-ACCACGAgAGGUG- -5'
19736 5' -53.2 NC_004687.1 + 152832 0.69 0.865774
Target:  5'- gGGAUGacGCcgucuccagGCCUGGUGCUggcaUCCACg -3'
miRNA:   3'- -UCUAU--CGuua------CGGACCACGAg---AGGUG- -5'
19736 5' -53.2 NC_004687.1 + 80165 0.69 0.857876
Target:  5'- aGGGUGGCAAUGCCccgcucgcccuUGGccagcgggaUGCUCUgCUGCg -3'
miRNA:   3'- -UCUAUCGUUACGG-----------ACC---------ACGAGA-GGUG- -5'
19736 5' -53.2 NC_004687.1 + 140608 0.7 0.832889
Target:  5'- cGGUGGCGGUGUgCaGGUGgUCUCCGg -3'
miRNA:   3'- uCUAUCGUUACG-GaCCACgAGAGGUg -5'
19736 5' -53.2 NC_004687.1 + 149530 0.7 0.806134
Target:  5'- cAGGUGGCGAUGCaccucGG-GCUCaCCGCa -3'
miRNA:   3'- -UCUAUCGUUACGga---CCaCGAGaGGUG- -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.