miRNA display CGI


Results 1 - 20 of 35 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
18503 3' -54.6 NC_004681.1 + 1044 0.66 0.832724
Target:  5'- cCGGUAGgucaGGGuGAGGUCGGCGucuuggaggaugagcUCGAGg -3'
miRNA:   3'- aGCUAUCg---CCC-CUUCAGCUGU---------------GGCUC- -5'
18503 3' -54.6 NC_004681.1 + 5917 0.74 0.405608
Target:  5'- aCGAUGGUGGuGGAAGagGGCAUgGAGc -3'
miRNA:   3'- aGCUAUCGCC-CCUUCagCUGUGgCUC- -5'
18503 3' -54.6 NC_004681.1 + 6379 0.73 0.452148
Target:  5'- cCGAUGGCgcugucgaGGGGGAGgaggcccCGGCGCCGAa -3'
miRNA:   3'- aGCUAUCG--------CCCCUUCa------GCUGUGGCUc -5'
18503 3' -54.6 NC_004681.1 + 6578 0.72 0.490395
Target:  5'- gCGAUcagaauuGGuCGGGGAuAGUccCGGCACCGAGg -3'
miRNA:   3'- aGCUA-------UC-GCCCCU-UCA--GCUGUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 6999 0.68 0.763424
Target:  5'- aCGGUGGUGGccacGGAcaugccguGGUCGACGUCGAGc -3'
miRNA:   3'- aGCUAUCGCC----CCU--------UCAGCUGUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 9455 0.68 0.733105
Target:  5'- -gGAUcAGCGGGGuGGU-GACaACCGGGa -3'
miRNA:   3'- agCUA-UCGCCCCuUCAgCUG-UGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 12297 0.78 0.258557
Target:  5'- gCGGcgcGCGGGGAAGccCGACGCCGGGu -3'
miRNA:   3'- aGCUau-CGCCCCUUCa-GCUGUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 14081 0.73 0.452148
Target:  5'- cUUGAguugGGCGGGGGacuucaucAGUUGACAUCGAa -3'
miRNA:   3'- -AGCUa---UCGCCCCU--------UCAGCUGUGGCUc -5'
18503 3' -54.6 NC_004681.1 + 14170 0.67 0.802013
Target:  5'- uUCGGcaaGGCGGgcaaGGAAGUCGgugucaaguucgGCACCGAa -3'
miRNA:   3'- -AGCUa--UCGCC----CCUUCAGC------------UGUGGCUc -5'
18503 3' -54.6 NC_004681.1 + 14648 0.69 0.680797
Target:  5'- gUGGUGGCGGuGGcGG-CGAUGCCGAc -3'
miRNA:   3'- aGCUAUCGCC-CCuUCaGCUGUGGCUc -5'
18503 3' -54.6 NC_004681.1 + 18210 0.69 0.680797
Target:  5'- cCGGUgccuGGcCGGGGgcGcCGAUGCCGGGg -3'
miRNA:   3'- aGCUA----UC-GCCCCuuCaGCUGUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 22468 0.67 0.802013
Target:  5'- cUCGAcguCGGGGAGGUCcuCGCCGuGg -3'
miRNA:   3'- -AGCUaucGCCCCUUCAGcuGUGGCuC- -5'
18503 3' -54.6 NC_004681.1 + 22865 0.67 0.783015
Target:  5'- cCG-UGGUGGGGucGUCaaugcGACACuCGAGg -3'
miRNA:   3'- aGCuAUCGCCCCuuCAG-----CUGUG-GCUC- -5'
18503 3' -54.6 NC_004681.1 + 22917 0.66 0.85467
Target:  5'- aUCGGaGGCGGGGucGccccggCGAUGCCGuAGu -3'
miRNA:   3'- -AGCUaUCGCCCCuuCa-----GCUGUGGC-UC- -5'
18503 3' -54.6 NC_004681.1 + 23152 0.67 0.802013
Target:  5'- gCGAUugcgGGCGGGGAcGUUGugGauugacggguCCGGGg -3'
miRNA:   3'- aGCUA----UCGCCCCUuCAGCugU----------GGCUC- -5'
18503 3' -54.6 NC_004681.1 + 25039 0.73 0.442604
Target:  5'- aUGAU-GCGGGGccgucgAAGUCGACGCCGc- -3'
miRNA:   3'- aGCUAuCGCCCC------UUCAGCUGUGGCuc -5'
18503 3' -54.6 NC_004681.1 + 25205 0.66 0.86272
Target:  5'- ----cAGCGGGGuGGguccgCGGCcaACCGAGg -3'
miRNA:   3'- agcuaUCGCCCCuUCa----GCUG--UGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 25902 0.67 0.792594
Target:  5'- gCGGUGGCGGuGAauGGcuUCGuCGCCGAGc -3'
miRNA:   3'- aGCUAUCGCCcCU--UC--AGCuGUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 31225 0.71 0.595304
Target:  5'- aUCGcagcGUGGCuGGGGGAc-CGGCGCCGAGu -3'
miRNA:   3'- -AGC----UAUCG-CCCCUUcaGCUGUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 32652 0.76 0.329868
Target:  5'- aCGGUGGCGGGGAccugGGcCGACAugugguCCGGGu -3'
miRNA:   3'- aGCUAUCGCCCCU----UCaGCUGU------GGCUC- -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.