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 + 57166 1.1 0.00183
Target:  5'- cUCGAUAGCGGGGAAGUCGACACCGAGa -3'
miRNA:   3'- -AGCUAUCGCCCCUUCAGCUGUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 43081 0.66 0.86272
Target:  5'- ----aAGCGGGGGAGaugccUCG-CACaCGAGg -3'
miRNA:   3'- agcuaUCGCCCCUUC-----AGCuGUG-GCUC- -5'
18503 3' -54.6 NC_004681.1 + 56212 0.66 0.829224
Target:  5'- gUCGGUGGCcuGGAccggcGUCGAC-CCGAGc -3'
miRNA:   3'- -AGCUAUCGccCCUu----CAGCUGuGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 60410 0.66 0.829224
Target:  5'- aCGGUA-CGGGGgcGUUGaACAUCGAc -3'
miRNA:   3'- aGCUAUcGCCCCuuCAGC-UGUGGCUc -5'
18503 3' -54.6 NC_004681.1 + 32859 0.67 0.811265
Target:  5'- uUCGccuUGGUGGGGuacUCGcaggGCGCCGAGg -3'
miRNA:   3'- -AGCu--AUCGCCCCuucAGC----UGUGGCUC- -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 + 58686 0.69 0.712396
Target:  5'- cUGAUGGCGGGGGAcguguuccucGUUGAU-CCGAu -3'
miRNA:   3'- aGCUAUCGCCCCUU----------CAGCUGuGGCUc -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 + 47188 0.71 0.58466
Target:  5'- gUGGUGGCGGGcAAGuUCGcCACCGAc -3'
miRNA:   3'- aGCUAUCGCCCcUUC-AGCuGUGGCUc -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 + 5917 0.74 0.405608
Target:  5'- aCGAUGGUGGuGGAAGagGGCAUgGAGc -3'
miRNA:   3'- aGCUAUCGCC-CCUUCagCUGUGgCUC- -5'
18503 3' -54.6 NC_004681.1 + 32652 0.76 0.329868
Target:  5'- aCGGUGGCGGGGAccugGGcCGACAugugguCCGGGu -3'
miRNA:   3'- aGCUAUCGCCCCU----UCaGCUGU------GGCUC- -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 + 65898 0.7 0.627382
Target:  5'- aCGG-GGUGGGGcGGcCGAgGCCGAGa -3'
miRNA:   3'- aGCUaUCGCCCCuUCaGCUgUGGCUC- -5'
18503 3' -54.6 NC_004681.1 + 60008 0.72 0.521837
Target:  5'- uUCGuagGGCGGGucggugacgauGGAGUCGACGCUGGc -3'
miRNA:   3'- -AGCua-UCGCCC-----------CUUCAGCUGUGGCUc -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 + 34692 0.73 0.461803
Target:  5'- aUCGA-GGUGGaGGAGG-CGuACACCGAGg -3'
miRNA:   3'- -AGCUaUCGCC-CCUUCaGC-UGUGGCUC- -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 + 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' 
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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.