miRNA display CGI


Results 1 - 20 of 20 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
19573 3' -58.9 NC_004686.1 + 3977 0.66 0.546794
Target:  5'- aGGAGGAUCCGcaggccgcGGAUacaugcggCGCAcCCGGCc -3'
miRNA:   3'- aCCUCUUAGGCc-------CCUA--------GCGU-GGCCGc -5'
19573 3' -58.9 NC_004686.1 + 49838 0.66 0.545755
Target:  5'- cGGAGcugGAUCgGGGcAUCGCcauaacccgcgugGCCGGCu -3'
miRNA:   3'- aCCUC---UUAGgCCCcUAGCG-------------UGGCCGc -5'
19573 3' -58.9 NC_004686.1 + 11593 0.66 0.536427
Target:  5'- cUGGuAGGcguagucgAUCgCGGGGAUCGCGCCa--- -3'
miRNA:   3'- -ACC-UCU--------UAG-GCCCCUAGCGUGGccgc -5'
19573 3' -58.9 NC_004686.1 + 38501 0.66 0.536427
Target:  5'- cGGcGAGUCCGGGGccgaugaUGCcCgCGGCGa -3'
miRNA:   3'- aCCuCUUAGGCCCCua-----GCGuG-GCCGC- -5'
19573 3' -58.9 NC_004686.1 + 49119 0.66 0.536427
Target:  5'- cGGGGGugugucauuccAUCC-GGGAUUGCACgUGGCu -3'
miRNA:   3'- aCCUCU-----------UAGGcCCCUAGCGUG-GCCGc -5'
19573 3' -58.9 NC_004686.1 + 10995 0.66 0.52613
Target:  5'- uUGGaAGcGUCCacguuucgguGGGGGUCGUGCucaCGGCGg -3'
miRNA:   3'- -ACC-UCuUAGG----------CCCCUAGCGUG---GCCGC- -5'
19573 3' -58.9 NC_004686.1 + 26522 0.67 0.475879
Target:  5'- aGGcaaguGGGAUCCGGGGAaccUCGaCAUgucgugguuccgCGGCGa -3'
miRNA:   3'- aCC-----UCUUAGGCCCCU---AGC-GUG------------GCCGC- -5'
19573 3' -58.9 NC_004686.1 + 3825 0.67 0.466113
Target:  5'- -cGAGGAUCuUGGGGccuaCGCGCUGGCc -3'
miRNA:   3'- acCUCUUAG-GCCCCua--GCGUGGCCGc -5'
19573 3' -58.9 NC_004686.1 + 45835 0.67 0.456451
Target:  5'- gUGGuGAAUUCGGcGGugaCGgGCCGGCc -3'
miRNA:   3'- -ACCuCUUAGGCC-CCua-GCgUGGCCGc -5'
19573 3' -58.9 NC_004686.1 + 46957 0.68 0.428133
Target:  5'- aUGGGGGgugagucguacgGUCCGGGcGGUgGCuCgGGCGg -3'
miRNA:   3'- -ACCUCU------------UAGGCCC-CUAgCGuGgCCGC- -5'
19573 3' -58.9 NC_004686.1 + 14021 0.68 0.418926
Target:  5'- cGGAGAAUCgaaCGGcaccucGGuUUGCGCCGGCc -3'
miRNA:   3'- aCCUCUUAG---GCC------CCuAGCGUGGCCGc -5'
19573 3' -58.9 NC_004686.1 + 11135 0.68 0.418926
Target:  5'- gUGGGcAGUCCGGGGcauaugCGUugCGuGCGg -3'
miRNA:   3'- -ACCUcUUAGGCCCCua----GCGugGC-CGC- -5'
19573 3' -58.9 NC_004686.1 + 17022 0.7 0.341761
Target:  5'- aUGGGugcGGA-CUGGuGGAUCGCucCCGGCGg -3'
miRNA:   3'- -ACCU---CUUaGGCC-CCUAGCGu-GGCCGC- -5'
19573 3' -58.9 NC_004686.1 + 37332 0.7 0.333063
Target:  5'- uUGGAGggUCCcggcgcgggagcgGGGGAaccaugccCGCGCCGGg- -3'
miRNA:   3'- -ACCUCuuAGG-------------CCCCUa-------GCGUGGCCgc -5'
19573 3' -58.9 NC_004686.1 + 9875 0.7 0.303544
Target:  5'- gUGGGGAcgCCGGcGGcgacCGCAgUGGCGg -3'
miRNA:   3'- -ACCUCUuaGGCC-CCua--GCGUgGCCGC- -5'
19573 3' -58.9 NC_004686.1 + 8779 0.71 0.274725
Target:  5'- gUGGAGAAcugcaccUCCGcGGaGAUCGCGCaGGCc -3'
miRNA:   3'- -ACCUCUU-------AGGC-CC-CUAGCGUGgCCGc -5'
19573 3' -58.9 NC_004686.1 + 41211 0.72 0.243205
Target:  5'- cGGAGaAGUUgGGGGAggacgcccCGUACUGGCGa -3'
miRNA:   3'- aCCUC-UUAGgCCCCUa-------GCGUGGCCGC- -5'
19573 3' -58.9 NC_004686.1 + 27722 0.74 0.169468
Target:  5'- cGGuGAugAUCCGGGcGAUCGCcgucugaucccgACCGGCa -3'
miRNA:   3'- aCCuCU--UAGGCCC-CUAGCG------------UGGCCGc -5'
19573 3' -58.9 NC_004686.1 + 1976 0.78 0.095808
Target:  5'- cGGucagcAGGAUCuugaacugcugugCGGGGGUCGCGCCGGCa -3'
miRNA:   3'- aCC-----UCUUAG-------------GCCCCUAGCGUGGCCGc -5'
19573 3' -58.9 NC_004686.1 + 11257 1.08 0.000632
Target:  5'- uUGGAGAAUCCGGGGAUCGCACCGGCGc -3'
miRNA:   3'- -ACCUCUUAGGCCCCUAGCGUGGCCGC- -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.