miRNA display CGI


Results 1 - 20 of 30 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
11546 3' -54.5 NC_003085.1 + 25149 0.66 0.782184
Target:  5'- cGAAGcgcGGUGUggcCGGCG--ACCGugGCCu -3'
miRNA:   3'- cCUUC---CCACA---GCCGUgaUGGCugUGG- -5'
11546 3' -54.5 NC_003085.1 + 40610 0.66 0.772183
Target:  5'- cGAGGGGccUGUgcugaCGGcCGCUGCCGuccucguCGCCc -3'
miRNA:   3'- cCUUCCC--ACA-----GCC-GUGAUGGCu------GUGG- -5'
11546 3' -54.5 NC_003085.1 + 13773 0.66 0.751759
Target:  5'- aGGAacAGGcucuucgugcucGUGUCGcGCACUcgcuccguCUGGCACCg -3'
miRNA:   3'- -CCU--UCC------------CACAGC-CGUGAu-------GGCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 17147 0.66 0.751759
Target:  5'- cGGAcuGGUGUgGGCggccguACUucUCGACGCCc -3'
miRNA:   3'- -CCUucCCACAgCCG------UGAu-GGCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 31304 0.66 0.741359
Target:  5'- ---cGGGca--GGCGCgcCCGACACCg -3'
miRNA:   3'- ccuuCCCacagCCGUGauGGCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 38100 0.66 0.741359
Target:  5'- uGAAGGGgaagCGGuCGCcguugggGCCGACGCg -3'
miRNA:   3'- cCUUCCCaca-GCC-GUGa------UGGCUGUGg -5'
11546 3' -54.5 NC_003085.1 + 11389 0.67 0.709543
Target:  5'- ---uGGGUGga-GCGCUACCGccggcugacGCACCg -3'
miRNA:   3'- ccuuCCCACagcCGUGAUGGC---------UGUGG- -5'
11546 3' -54.5 NC_003085.1 + 37510 0.67 0.709543
Target:  5'- cGGGcgcGGG-GUUGGCGCUcgcuaGCCG-CACUg -3'
miRNA:   3'- -CCUu--CCCaCAGCCGUGA-----UGGCuGUGG- -5'
11546 3' -54.5 NC_003085.1 + 34319 0.67 0.709543
Target:  5'- uGAAGGGcGagGGCcCUGCCccgGugGCCa -3'
miRNA:   3'- cCUUCCCaCagCCGuGAUGG---CugUGG- -5'
11546 3' -54.5 NC_003085.1 + 20033 0.67 0.709543
Target:  5'- uGGAGGa---CGGCAUUGCCGcCGCCc -3'
miRNA:   3'- cCUUCCcacaGCCGUGAUGGCuGUGG- -5'
11546 3' -54.5 NC_003085.1 + 20932 0.67 0.698771
Target:  5'- ---uGGGUGggCGGCACcGCagcggcgagcuCGGCGCCg -3'
miRNA:   3'- ccuuCCCACa-GCCGUGaUG-----------GCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 26819 0.67 0.698771
Target:  5'- cGAAGGGccGcCGGUugagugacaGC-ACCGGCGCCg -3'
miRNA:   3'- cCUUCCCa-CaGCCG---------UGaUGGCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 6269 0.67 0.687934
Target:  5'- uGGAguAGGuauuUGUCGGCACcgUCGGCACg -3'
miRNA:   3'- -CCU--UCCc---ACAGCCGUGauGGCUGUGg -5'
11546 3' -54.5 NC_003085.1 + 34813 0.67 0.687934
Target:  5'- uGGgcGGGagccuUCGGCGCUgACCGAgCGCg -3'
miRNA:   3'- -CCuuCCCac---AGCCGUGA-UGGCU-GUGg -5'
11546 3' -54.5 NC_003085.1 + 28458 0.67 0.687934
Target:  5'- -cAGGGcGUGgauugaGGCGCUcACCGGCugCg -3'
miRNA:   3'- ccUUCC-CACag----CCGUGA-UGGCUGugG- -5'
11546 3' -54.5 NC_003085.1 + 12094 0.67 0.687934
Target:  5'- gGGgcGGGUGaCGcGCGCaaguCgGACGCCc -3'
miRNA:   3'- -CCuuCCCACaGC-CGUGau--GgCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 7483 0.67 0.675953
Target:  5'- cGGGAGGGccccaGUCGG-ACUcgugccaguucacGCgGGCGCCg -3'
miRNA:   3'- -CCUUCCCa----CAGCCgUGA-------------UGgCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 23 0.68 0.655147
Target:  5'- aGGAGGGcGUacaugGGCGCUACgcaGGCGCUg -3'
miRNA:   3'- cCUUCCCaCAg----CCGUGAUGg--CUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 19164 0.68 0.648557
Target:  5'- cGAAgcGGGUG-CGGCGCacuccguccgggcCCGGCGCCu -3'
miRNA:   3'- cCUU--CCCACaGCCGUGau-----------GGCUGUGG- -5'
11546 3' -54.5 NC_003085.1 + 25050 0.68 0.633165
Target:  5'- aGGAcccGGUGuUCGGCGCgGCCGAguUCa -3'
miRNA:   3'- -CCUuc-CCAC-AGCCGUGaUGGCUguGG- -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.