miRNA display CGI


Results 1 - 16 of 16 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
18474 3' -52.7 NC_004681.1 + 57516 0.66 0.921157
Target:  5'- -cCGAGGAAgggugACgccagcaucgCGGAGCGCgcUGAg -3'
miRNA:   3'- caGCUCCUUa----UGa---------GCCUCGCGauGCU- -5'
18474 3' -52.7 NC_004681.1 + 31388 0.66 0.921157
Target:  5'- -gUGAGG---GCUaCGGGGCGCgcgACGGa -3'
miRNA:   3'- caGCUCCuuaUGA-GCCUCGCGa--UGCU- -5'
18474 3' -52.7 NC_004681.1 + 71730 0.66 0.915066
Target:  5'- -gCGAGGAAgGCUCuGAGCcgguucaCUACGAu -3'
miRNA:   3'- caGCUCCUUaUGAGcCUCGc------GAUGCU- -5'
18474 3' -52.7 NC_004681.1 + 23745 0.66 0.915066
Target:  5'- -cCGAGGAAgucgUCGGAGUGCaGCu- -3'
miRNA:   3'- caGCUCCUUaug-AGCCUCGCGaUGcu -5'
18474 3' -52.7 NC_004681.1 + 10007 0.66 0.908704
Target:  5'- uUCGGGGAAgGCgUCGGccAGCuGCUggGCGAa -3'
miRNA:   3'- cAGCUCCUUaUG-AGCC--UCG-CGA--UGCU- -5'
18474 3' -52.7 NC_004681.1 + 58966 0.66 0.888016
Target:  5'- -gCGAGGAGguggaugguuUGCUCgugGGAGUGgUGCGGg -3'
miRNA:   3'- caGCUCCUU----------AUGAG---CCUCGCgAUGCU- -5'
18474 3' -52.7 NC_004681.1 + 75378 0.67 0.880599
Target:  5'- -gUGcAGGGu--UUgGGAGCGCUACGAg -3'
miRNA:   3'- caGC-UCCUuauGAgCCUCGCGAUGCU- -5'
18474 3' -52.7 NC_004681.1 + 29075 0.68 0.831032
Target:  5'- uUCGAcGGAAUugU--GAGCGCUugGGa -3'
miRNA:   3'- cAGCU-CCUUAugAgcCUCGCGAugCU- -5'
18474 3' -52.7 NC_004681.1 + 51474 0.68 0.812768
Target:  5'- uGUCGAGGA--GCUgGGGG-GCUcCGAu -3'
miRNA:   3'- -CAGCUCCUuaUGAgCCUCgCGAuGCU- -5'
18474 3' -52.7 NC_004681.1 + 50961 0.7 0.7435
Target:  5'- uGUCGGGG--UACUCGGcggcgaGGCGCUucaccucuucgGCGAg -3'
miRNA:   3'- -CAGCUCCuuAUGAGCC------UCGCGA-----------UGCU- -5'
18474 3' -52.7 NC_004681.1 + 39964 0.7 0.72254
Target:  5'- gGUCGAGGAAgcgcUGCUCGaacuuGGCGCgcGCGGg -3'
miRNA:   3'- -CAGCUCCUU----AUGAGCc----UCGCGa-UGCU- -5'
18474 3' -52.7 NC_004681.1 + 42957 0.7 0.711923
Target:  5'- uUCGAGGGucaccuCUCGGAcaaccuGCGCUACa- -3'
miRNA:   3'- cAGCUCCUuau---GAGCCU------CGCGAUGcu -5'
18474 3' -52.7 NC_004681.1 + 57779 0.71 0.679646
Target:  5'- -cCGAGGAuUGCgUC-GAGCGCUGCGc -3'
miRNA:   3'- caGCUCCUuAUG-AGcCUCGCGAUGCu -5'
18474 3' -52.7 NC_004681.1 + 35488 0.73 0.56961
Target:  5'- cGUCGAGGAAUccggccaccggugGCUUGGA-CGCaGCGAg -3'
miRNA:   3'- -CAGCUCCUUA-------------UGAGCCUcGCGaUGCU- -5'
18474 3' -52.7 NC_004681.1 + 57017 0.75 0.437021
Target:  5'- aUCGAGGggUACUCGGGGUcgGCaccacCGAa -3'
miRNA:   3'- cAGCUCCuuAUGAGCCUCG--CGau---GCU- -5'
18474 3' -52.7 NC_004681.1 + 46804 1.1 0.002488
Target:  5'- cGUCGAGGAAUACUCGGAGCGCUACGAg -3'
miRNA:   3'- -CAGCUCCUUAUGAGCCUCGCGAUGCU- -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.