miRNA display CGI


Results 1 - 20 of 31 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
27019 3' -53.5 NC_005832.1 + 2154 1.09 0.003241
Target:  5'- aGACCCCAGGACCGUCUUAAAGUCCGAg -3'
miRNA:   3'- -CUGGGGUCCUGGCAGAAUUUCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 4625 0.68 0.837203
Target:  5'- cGACCCCAGGAUgGgaUCggcgGGGG-CCGAc -3'
miRNA:   3'- -CUGGGGUCCUGgC--AGaa--UUUCaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 5209 0.66 0.93413
Target:  5'- cGACCCC---GCCGUCga-GGGUCUGGu -3'
miRNA:   3'- -CUGGGGuccUGGCAGaauUUCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 5659 0.69 0.819738
Target:  5'- cGACgCCCGGGACCcGUCggu-GGuUCUGAg -3'
miRNA:   3'- -CUG-GGGUCCUGG-CAGaauuUC-AGGCU- -5'
27019 3' -53.5 NC_005832.1 + 6811 0.68 0.836348
Target:  5'- aACCCCAGGGaggUGUUUUuucacgcAAAGUCCGGc -3'
miRNA:   3'- cUGGGGUCCUg--GCAGAA-------UUUCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 16625 0.71 0.712612
Target:  5'- uGGCUCCAGGACCGUgUUG----CCGAc -3'
miRNA:   3'- -CUGGGGUCCUGGCAgAAUuucaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 20110 0.73 0.596458
Target:  5'- cGAUCCuCAGGACCGcCUgcaUGAcGUCCGGg -3'
miRNA:   3'- -CUGGG-GUCCUGGCaGA---AUUuCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 22027 0.66 0.93413
Target:  5'- uGAUCCUaaaGGGAuCCGUCUUAAAGUa--- -3'
miRNA:   3'- -CUGGGG---UCCU-GGCAGAAUUUCAggcu -5'
27019 3' -53.5 NC_005832.1 + 27737 0.66 0.928825
Target:  5'- -cCCCCAGG-CCGUCUaUGGAGUaCUc- -3'
miRNA:   3'- cuGGGGUCCuGGCAGA-AUUUCA-GGcu -5'
27019 3' -53.5 NC_005832.1 + 36213 0.67 0.911366
Target:  5'- aGCgCCAGGGCgGUCgu--GGUCCa- -3'
miRNA:   3'- cUGgGGUCCUGgCAGaauuUCAGGcu -5'
27019 3' -53.5 NC_005832.1 + 41291 0.66 0.923262
Target:  5'- -uCCCguGGACC----UAAAGUCCGAc -3'
miRNA:   3'- cuGGGguCCUGGcagaAUUUCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 47132 0.67 0.905034
Target:  5'- uGGCCCCAGGGcacucgcuuuCCGUCggcGGGGUCa-- -3'
miRNA:   3'- -CUGGGGUCCU----------GGCAGaa-UUUCAGgcu -5'
27019 3' -53.5 NC_005832.1 + 47250 0.66 0.938684
Target:  5'- uGCCCUGGGGCCaggacccuccaguGUCUgacGAGcCCGAc -3'
miRNA:   3'- cUGGGGUCCUGG-------------CAGAau-UUCaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 49631 0.68 0.877216
Target:  5'- cACCCUcuuuGGGACCaUCcUAGAGUCCa- -3'
miRNA:   3'- cUGGGG----UCCUGGcAGaAUUUCAGGcu -5'
27019 3' -53.5 NC_005832.1 + 54045 0.67 0.911366
Target:  5'- uGGCCCCaggccuccuucAGGACCccuuUCUggUGAGGUCUGGg -3'
miRNA:   3'- -CUGGGG-----------UCCUGGc---AGA--AUUUCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 54117 0.68 0.86966
Target:  5'- aGCUCCAGGGCCaugaagGUCUUgccGAAG-CCGGg -3'
miRNA:   3'- cUGGGGUCCUGG------CAGAA---UUUCaGGCU- -5'
27019 3' -53.5 NC_005832.1 + 54146 0.69 0.819738
Target:  5'- uGCCCgAGGACCuGUacgUGAcgGGUCCGGc -3'
miRNA:   3'- cUGGGgUCCUGG-CAga-AUU--UCAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 56442 0.67 0.891616
Target:  5'- -uCCCCAGG-CCGUCaagaUAGAgggcuucucGUCCGAc -3'
miRNA:   3'- cuGGGGUCCuGGCAGa---AUUU---------CAGGCU- -5'
27019 3' -53.5 NC_005832.1 + 65373 0.66 0.93413
Target:  5'- uACCUCaggagGGGACCGUUga-GAGUCCa- -3'
miRNA:   3'- cUGGGG-----UCCUGGCAGaauUUCAGGcu -5'
27019 3' -53.5 NC_005832.1 + 66917 0.66 0.932039
Target:  5'- gGACCCCAGc-CCGUCUaccccaaacuGUCUGAg -3'
miRNA:   3'- -CUGGGGUCcuGGCAGAauuu------CAGGCU- -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.