miRNA display CGI


Results 1 - 20 of 40 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
16461 3' -54.3 NC_004084.1 + 57471 0.69 0.57433
Target:  5'- aGAugGccCGCGaccucCUCCGGGAGCGUCACCa -3'
miRNA:   3'- -CUugUa-GUGC-----GAGGUCCUCGUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 56574 0.78 0.187243
Target:  5'- --cCGUCGCGCUgCAGGAGC-CaCACCg -3'
miRNA:   3'- cuuGUAGUGCGAgGUCCUCGuG-GUGG- -5'
16461 3' -54.3 NC_004084.1 + 56101 0.66 0.779924
Target:  5'- gGAGC-UCAacaagauCUCCGGcGAGCACgACCa -3'
miRNA:   3'- -CUUGuAGUgc-----GAGGUC-CUCGUGgUGG- -5'
16461 3' -54.3 NC_004084.1 + 55206 0.67 0.695662
Target:  5'- ---aGUCAC-CUCCAGugguGAGCuucGCCACCg -3'
miRNA:   3'- cuugUAGUGcGAGGUC----CUCG---UGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 55024 0.73 0.391418
Target:  5'- -uGCGUCucguugUGCUCgAGGAGCuCCGCCa -3'
miRNA:   3'- cuUGUAGu-----GCGAGgUCCUCGuGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 49117 0.67 0.684727
Target:  5'- aGAGCGUCACGaUCUgaAGGAGCcggACCAg- -3'
miRNA:   3'- -CUUGUAGUGCgAGG--UCCUCG---UGGUgg -5'
16461 3' -54.3 NC_004084.1 + 43702 0.7 0.520338
Target:  5'- cAACGaucUCAacgaGCUCCAGGA-CGCCAUCg -3'
miRNA:   3'- cUUGU---AGUg---CGAGGUCCUcGUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 43365 1.12 0.000788
Target:  5'- cGAACAUCACGCUCCAGGAGCACCACCu -3'
miRNA:   3'- -CUUGUAGUGCGAGGUCCUCGUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 43107 0.71 0.458385
Target:  5'- cGACGaCugGCUCUGGGAGCAgUACg -3'
miRNA:   3'- cUUGUaGugCGAGGUCCUCGUgGUGg -5'
16461 3' -54.3 NC_004084.1 + 41796 0.78 0.182228
Target:  5'- aGGGCGUCACGaucgacCUCgAGGAGC-CCGCCg -3'
miRNA:   3'- -CUUGUAGUGC------GAGgUCCUCGuGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 38761 0.73 0.364735
Target:  5'- cGAACAguUCugGCUCCAcauGGA-CGCCAUCg -3'
miRNA:   3'- -CUUGU--AGugCGAGGU---CCUcGUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 38516 0.68 0.651661
Target:  5'- cGAGCAUCGuucgaaguuccUGUUCUAcaccGGcGGCACCGCCg -3'
miRNA:   3'- -CUUGUAGU-----------GCGAGGU----CC-UCGUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 34710 0.66 0.78988
Target:  5'- -cGCGUCcauCGCcgUCUGGGAGaCGCuCACCg -3'
miRNA:   3'- cuUGUAGu--GCG--AGGUCCUC-GUG-GUGG- -5'
16461 3' -54.3 NC_004084.1 + 31363 0.68 0.662715
Target:  5'- cGAGCAUCGCGCgaucgacaCCAGaGAGUucaGCCcggcgaagGCCg -3'
miRNA:   3'- -CUUGUAGUGCGa-------GGUC-CUCG---UGG--------UGG- -5'
16461 3' -54.3 NC_004084.1 + 30944 0.68 0.651661
Target:  5'- cGACGUCGaGCUCgAGGA-CGCCgACCg -3'
miRNA:   3'- cUUGUAGUgCGAGgUCCUcGUGG-UGG- -5'
16461 3' -54.3 NC_004084.1 + 30296 0.66 0.78988
Target:  5'- aGGACGUCauugacGCGCUCgucgAGGcGCACC-CCg -3'
miRNA:   3'- -CUUGUAG------UGCGAGg---UCCuCGUGGuGG- -5'
16461 3' -54.3 NC_004084.1 + 29261 0.67 0.695662
Target:  5'- cGAACGgccCGCGCgaCCAcaccAGCACCGCCg -3'
miRNA:   3'- -CUUGUa--GUGCGa-GGUcc--UCGUGGUGG- -5'
16461 3' -54.3 NC_004084.1 + 29099 0.67 0.684727
Target:  5'- gGGACGUCcuccGCGCcaUCCAGGuAGCGuacCCACa -3'
miRNA:   3'- -CUUGUAG----UGCG--AGGUCC-UCGU---GGUGg -5'
16461 3' -54.3 NC_004084.1 + 29034 0.66 0.779924
Target:  5'- cGGCAUCACcUUCCAGGAGgGaCGCg -3'
miRNA:   3'- cUUGUAGUGcGAGGUCCUCgUgGUGg -5'
16461 3' -54.3 NC_004084.1 + 29012 0.7 0.520338
Target:  5'- cAACcgCgACGCcCCAGGAGUgGCCGCCc -3'
miRNA:   3'- cUUGuaG-UGCGaGGUCCUCG-UGGUGG- -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.