miRNA display CGI


Results 1 - 20 of 26 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
19050 3' -63.9 NC_004684.1 + 56082 0.66 0.354625
Target:  5'- gAGGUGCUgugCGGcaugcuGGCGguGGcGGUGGCa -3'
miRNA:   3'- -UCCACGG---GCC------UCGCguCCcCUACCGc -5'
19050 3' -63.9 NC_004684.1 + 40450 0.66 0.339043
Target:  5'- cGGUGCCCaGGcGGcCGCcugcucGGGGGUcucGGCGg -3'
miRNA:   3'- uCCACGGG-CC-UC-GCGu-----CCCCUA---CCGC- -5'
19050 3' -63.9 NC_004684.1 + 36985 0.66 0.323964
Target:  5'- cAGGUguuGCCaCGGcAGCGCc-GGGAUGcGCGu -3'
miRNA:   3'- -UCCA---CGG-GCC-UCGCGucCCCUAC-CGC- -5'
19050 3' -63.9 NC_004684.1 + 47414 0.66 0.323223
Target:  5'- cGGUGCCUgcuGGAgGUGguGGGGGUugaucgcGGCc -3'
miRNA:   3'- uCCACGGG---CCU-CGCguCCCCUA-------CCGc -5'
19050 3' -63.9 NC_004684.1 + 19775 0.67 0.30939
Target:  5'- cGGUGCCCgccgGGGGCGaCAa--GAUGGCGg -3'
miRNA:   3'- uCCACGGG----CCUCGC-GUcccCUACCGC- -5'
19050 3' -63.9 NC_004684.1 + 15512 0.67 0.30939
Target:  5'- aAGGccGCCCGGGGC-CGGGcgcuGGA-GGCGc -3'
miRNA:   3'- -UCCa-CGGGCCUCGcGUCC----CCUaCCGC- -5'
19050 3' -63.9 NC_004684.1 + 16753 0.67 0.302292
Target:  5'- cGGcugGCCUGGAacuCGC-GGGGAUGaGCGg -3'
miRNA:   3'- uCCa--CGGGCCUc--GCGuCCCCUAC-CGC- -5'
19050 3' -63.9 NC_004684.1 + 14732 0.67 0.295321
Target:  5'- gAGGUGCUggccaccugGGAGCGCAagcaugccGGuGAUGGCGa -3'
miRNA:   3'- -UCCACGGg--------CCUCGCGU--------CCcCUACCGC- -5'
19050 3' -63.9 NC_004684.1 + 36999 0.67 0.288475
Target:  5'- aAGGUGUacauCCGGcGCGCGGGGuccGAUGaGCc -3'
miRNA:   3'- -UCCACG----GGCCuCGCGUCCC---CUAC-CGc -5'
19050 3' -63.9 NC_004684.1 + 6447 0.67 0.275159
Target:  5'- ---cGCuuGGccgaGGCGCAGGGGAUgaugaccagcugGGCGg -3'
miRNA:   3'- uccaCGggCC----UCGCGUCCCCUA------------CCGC- -5'
19050 3' -63.9 NC_004684.1 + 66637 0.68 0.268688
Target:  5'- cGGUGUCCaGGAGCGCcgccAGGGcGUcGGUGu -3'
miRNA:   3'- uCCACGGG-CCUCGCG----UCCCcUA-CCGC- -5'
19050 3' -63.9 NC_004684.1 + 52545 0.68 0.256114
Target:  5'- gAGGUGUCCGGcaccGGUucGUAGGuGAUGGUGa -3'
miRNA:   3'- -UCCACGGGCC----UCG--CGUCCcCUACCGC- -5'
19050 3' -63.9 NC_004684.1 + 25573 0.68 0.25001
Target:  5'- aAGGUGCgcuacCCGGAGCGCuccagauugGGuGGGAcgccgGGCa -3'
miRNA:   3'- -UCCACG-----GGCCUCGCG---------UC-CCCUa----CCGc -5'
19050 3' -63.9 NC_004684.1 + 53628 0.68 0.25001
Target:  5'- uGGUcGCCUGGAGCGCcAGGccguugagcaccGaGGUGGUGg -3'
miRNA:   3'- uCCA-CGGGCCUCGCG-UCC------------C-CUACCGC- -5'
19050 3' -63.9 NC_004684.1 + 60734 0.68 0.244027
Target:  5'- gAGGUGCCCGGcgaccggguGGCcgccgGguGGGGGuUGGUc -3'
miRNA:   3'- -UCCACGGGCC---------UCG-----CguCCCCU-ACCGc -5'
19050 3' -63.9 NC_004684.1 + 62153 0.69 0.231849
Target:  5'- -cGUGCCCGGccuuGCGCAGGGcucgcguGAcccggccgaugaUGGCGa -3'
miRNA:   3'- ucCACGGGCCu---CGCGUCCC-------CU------------ACCGC- -5'
19050 3' -63.9 NC_004684.1 + 56929 0.69 0.221276
Target:  5'- --cUGCCUGGAGCGCGcccGGGAcUGGUGc -3'
miRNA:   3'- uccACGGGCCUCGCGUc--CCCU-ACCGC- -5'
19050 3' -63.9 NC_004684.1 + 54779 0.69 0.221276
Target:  5'- cGGUGCCCGcaaGGUGCGcGGcGUGGCGg -3'
miRNA:   3'- uCCACGGGCc--UCGCGUcCCcUACCGC- -5'
19050 3' -63.9 NC_004684.1 + 57595 0.69 0.215878
Target:  5'- cGGGUGCCaccGGCGCAGGGccucGGCGu -3'
miRNA:   3'- -UCCACGGgccUCGCGUCCCcua-CCGC- -5'
19050 3' -63.9 NC_004684.1 + 46329 0.69 0.205932
Target:  5'- cAGGUGCCCGGucagcaccggcacccGUGCAcGGGucucguUGGCGa -3'
miRNA:   3'- -UCCACGGGCCu--------------CGCGUcCCCu-----ACCGC- -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.