miRNA display CGI


Results 1 - 19 of 19 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
12349 3' -57.3 NC_003324.1 + 20611 0.66 0.638655
Target:  5'- --gCCGGCGCugaugggcgcUUGCGGucGGCGGGCa -3'
miRNA:   3'- guaGGUCGCGu---------AGCGCCu-CUGCUCGc -5'
12349 3' -57.3 NC_003324.1 + 14989 0.66 0.638655
Target:  5'- --aCCuauGCGCAggacuuccaGCGcGAGACGGGCa -3'
miRNA:   3'- guaGGu--CGCGUag-------CGC-CUCUGCUCGc -5'
12349 3' -57.3 NC_003324.1 + 44807 0.66 0.617028
Target:  5'- -cUCUGGCGCGUgGggaaCGGAGAagGAGCGc -3'
miRNA:   3'- guAGGUCGCGUAgC----GCCUCUg-CUCGC- -5'
12349 3' -57.3 NC_003324.1 + 17319 0.66 0.606229
Target:  5'- --gCCugcGCGUAUCuCGGAGACcuauGAGCGg -3'
miRNA:   3'- guaGGu--CGCGUAGcGCCUCUG----CUCGC- -5'
12349 3' -57.3 NC_003324.1 + 28851 0.66 0.595451
Target:  5'- aCAUCCAGaagaaGCugGUCGCGGucagAGAUgcgGAGCGc -3'
miRNA:   3'- -GUAGGUCg----CG--UAGCGCC----UCUG---CUCGC- -5'
12349 3' -57.3 NC_003324.1 + 23468 0.67 0.584704
Target:  5'- --gCCgAGCGCGUCaaaGCGGAGugGcgaaAGUGg -3'
miRNA:   3'- guaGG-UCGCGUAG---CGCCUCugC----UCGC- -5'
12349 3' -57.3 NC_003324.1 + 35472 0.67 0.573995
Target:  5'- --gUCGGCGag-CGUGGGGACG-GCGa -3'
miRNA:   3'- guaGGUCGCguaGCGCCUCUGCuCGC- -5'
12349 3' -57.3 NC_003324.1 + 10762 0.67 0.573995
Target:  5'- gAUCCuGCGCcauAUCGcCGGAGAa-AGCGc -3'
miRNA:   3'- gUAGGuCGCG---UAGC-GCCUCUgcUCGC- -5'
12349 3' -57.3 NC_003324.1 + 23752 0.67 0.563332
Target:  5'- --cCCGGCGCGcCGUGGAuaccGGCGaAGCa -3'
miRNA:   3'- guaGGUCGCGUaGCGCCU----CUGC-UCGc -5'
12349 3' -57.3 NC_003324.1 + 14090 0.67 0.552722
Target:  5'- ---gCAGCGCucaaggaaGCGGAGACcGGCGa -3'
miRNA:   3'- guagGUCGCGuag-----CGCCUCUGcUCGC- -5'
12349 3' -57.3 NC_003324.1 + 19100 0.67 0.552722
Target:  5'- --gCCuGCGCAUCGCGuucGAGGCcAGCc -3'
miRNA:   3'- guaGGuCGCGUAGCGC---CUCUGcUCGc -5'
12349 3' -57.3 NC_003324.1 + 16158 0.67 0.531692
Target:  5'- --gCCAG-GCAUCGCuggcaccGAGGCGGGCa -3'
miRNA:   3'- guaGGUCgCGUAGCGc------CUCUGCUCGc -5'
12349 3' -57.3 NC_003324.1 + 19317 0.67 0.531692
Target:  5'- cCAUgUAGCGC-UCGCGGAGccccuuauagaACG-GCGa -3'
miRNA:   3'- -GUAgGUCGCGuAGCGCCUC-----------UGCuCGC- -5'
12349 3' -57.3 NC_003324.1 + 34569 0.68 0.510958
Target:  5'- uCGUCuCAuGCGCcUUGCGGAGAUGcuucggguucAGCGg -3'
miRNA:   3'- -GUAG-GU-CGCGuAGCGCCUCUGC----------UCGC- -5'
12349 3' -57.3 NC_003324.1 + 48985 0.68 0.510958
Target:  5'- gAUCUuguGGCGgGUgGCGGAGuccuggauGCGGGCGa -3'
miRNA:   3'- gUAGG---UCGCgUAgCGCCUC--------UGCUCGC- -5'
12349 3' -57.3 NC_003324.1 + 25852 0.69 0.431859
Target:  5'- gAUgCGGCGCGUgGUGGAG-CGAucGCGa -3'
miRNA:   3'- gUAgGUCGCGUAgCGCCUCuGCU--CGC- -5'
12349 3' -57.3 NC_003324.1 + 20775 0.69 0.430915
Target:  5'- gGUCCGGCGCAacggagcUCGaaGAGACG-GCu -3'
miRNA:   3'- gUAGGUCGCGU-------AGCgcCUCUGCuCGc -5'
12349 3' -57.3 NC_003324.1 + 22705 0.74 0.225563
Target:  5'- cUAUgCAGCGCGUCGCGGGGcuCGGcaacGCGg -3'
miRNA:   3'- -GUAgGUCGCGUAGCGCCUCu-GCU----CGC- -5'
12349 3' -57.3 NC_003324.1 + 23712 1.08 0.000877
Target:  5'- uCAUCCAGCGCAUCGCGGAGACGAGCGu -3'
miRNA:   3'- -GUAGGUCGCGUAGCGCCUCUGCUCGC- -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.