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
12404 5' -51.4 NC_003324.1 + 30616 0.66 0.930478
Target:  5'- -aG-CGcgUCG-CAGCGGcAGCGGCa -3'
miRNA:   3'- ggCaGUuaAGCaGUCGCUaUCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 3396 0.66 0.930478
Target:  5'- aCCGUC--UUCGggcugCAGUGAaGGCGGa- -3'
miRNA:   3'- -GGCAGuuAAGCa----GUCGCUaUCGCCgc -5'
12404 5' -51.4 NC_003324.1 + 25508 0.66 0.930478
Target:  5'- uUGUCGAguUUCcgcaacagGGUGAUGGCGGCGa -3'
miRNA:   3'- gGCAGUU--AAGcag-----UCGCUAUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 25652 0.66 0.924725
Target:  5'- aCCGcCGAggacaaUC-UCGGCGAaGGCGGCc -3'
miRNA:   3'- -GGCaGUUa-----AGcAGUCGCUaUCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 8326 0.66 0.924725
Target:  5'- gCCGUCGgcgcucguuacgGUgacCGUCGGCGGggAGCuGCGu -3'
miRNA:   3'- -GGCAGU------------UAa--GCAGUCGCUa-UCGcCGC- -5'
12404 5' -51.4 NC_003324.1 + 52183 0.67 0.898899
Target:  5'- cUCGUCAAaauaaUCGUCGGCGuccuUA-CGGCa -3'
miRNA:   3'- -GGCAGUUa----AGCAGUCGCu---AUcGCCGc -5'
12404 5' -51.4 NC_003324.1 + 23461 0.67 0.891749
Target:  5'- gCGUCAAagCGgagUGGCGAaAGUGGCu -3'
miRNA:   3'- gGCAGUUaaGCa--GUCGCUaUCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 2506 0.68 0.863816
Target:  5'- gCCGcCGg--CGUCGGCGGcuucaucaucggcguUGGCGGUGu -3'
miRNA:   3'- -GGCaGUuaaGCAGUCGCU---------------AUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 29944 0.68 0.860509
Target:  5'- uCCGgacgggCGAggggCGUCcuGCG-UAGCGGCGg -3'
miRNA:   3'- -GGCa-----GUUaa--GCAGu-CGCuAUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 20423 0.68 0.860509
Target:  5'- aUGUCGAaccggcUUCuGUCGGCGAUGGCGa-- -3'
miRNA:   3'- gGCAGUU------AAG-CAGUCGCUAUCGCcgc -5'
12404 5' -51.4 NC_003324.1 + 7418 0.68 0.852071
Target:  5'- aCCG-CA--UCGUCAGCGugcccucGGCGcGCGg -3'
miRNA:   3'- -GGCaGUuaAGCAGUCGCua-----UCGC-CGC- -5'
12404 5' -51.4 NC_003324.1 + 12273 0.68 0.852071
Target:  5'- aCCGUCcggcggcUCGUuccaguccgCAGaCGGUAGCGGCu -3'
miRNA:   3'- -GGCAGuua----AGCA---------GUC-GCUAUCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 29137 0.68 0.834495
Target:  5'- uCCGUCGAggaccUCGcCAGC-AUGGCGGa- -3'
miRNA:   3'- -GGCAGUUa----AGCaGUCGcUAUCGCCgc -5'
12404 5' -51.4 NC_003324.1 + 48279 0.68 0.834495
Target:  5'- cUCGUCAGUggucUCGgagaacCAGCGAacGCGGCc -3'
miRNA:   3'- -GGCAGUUA----AGCa-----GUCGCUauCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 48944 0.68 0.825376
Target:  5'- gCCGUCGcUUCuUCGGCaGUcGCGGCa -3'
miRNA:   3'- -GGCAGUuAAGcAGUCGcUAuCGCCGc -5'
12404 5' -51.4 NC_003324.1 + 44574 0.69 0.786924
Target:  5'- cCCGU----UCGgCAGCGAcacGGCGGCGa -3'
miRNA:   3'- -GGCAguuaAGCaGUCGCUa--UCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 19366 0.69 0.786924
Target:  5'- cUCGUC----CGUCAGCGAUGGaucgacgcCGGCGc -3'
miRNA:   3'- -GGCAGuuaaGCAGUCGCUAUC--------GCCGC- -5'
12404 5' -51.4 NC_003324.1 + 29796 0.69 0.776871
Target:  5'- aUCGUU--UUCGaCAGCGGUAcCGGCGa -3'
miRNA:   3'- -GGCAGuuAAGCaGUCGCUAUcGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 21388 0.7 0.766665
Target:  5'- aUCGagGAUaUCGcCGGCGA-GGCGGCGa -3'
miRNA:   3'- -GGCagUUA-AGCaGUCGCUaUCGCCGC- -5'
12404 5' -51.4 NC_003324.1 + 30327 0.7 0.755275
Target:  5'- aUCGcCGAUggUGUCGGCGGUGGCgucgcucGGCGc -3'
miRNA:   3'- -GGCaGUUAa-GCAGUCGCUAUCG-------CCGC- -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.