miRNA display CGI


Results 21 - 40 of 46 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
28124 3' -60.3 NC_005887.1 + 23027 0.69 0.254045
Target:  5'- gGCGGUGGCGAagguauCGAACGuaUgGGCCa -3'
miRNA:   3'- aUGCCACCGCU------GCUUGCugGgCCGGc -5'
28124 3' -60.3 NC_005887.1 + 2687 0.69 0.273838
Target:  5'- gUGCGcGUGaaGCGuACGGGCGGCaagCGGCCGa -3'
miRNA:   3'- -AUGC-CAC--CGC-UGCUUGCUGg--GCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 2873 0.68 0.290546
Target:  5'- gGCGGUGGauaacgcgcaggcgaCGACGGAC-ACgUCGGCCGc -3'
miRNA:   3'- aUGCCACC---------------GCUGCUUGcUG-GGCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 4755 0.68 0.302123
Target:  5'- gGCGGUGcuuuuGCGACGAGCGcgggaagcugacGCCagccggcgaGGCCGu -3'
miRNA:   3'- aUGCCAC-----CGCUGCUUGC------------UGGg--------CCGGC- -5'
28124 3' -60.3 NC_005887.1 + 40896 0.68 0.309538
Target:  5'- gACGGUGaCGACGAGCcGCCgaaGGCUa -3'
miRNA:   3'- aUGCCACcGCUGCUUGcUGGg--CCGGc -5'
28124 3' -60.3 NC_005887.1 + 13182 0.68 0.31709
Target:  5'- aGCGG-GaGCGGuCGAGCaGGCCgcCGGCCGa -3'
miRNA:   3'- aUGCCaC-CGCU-GCUUG-CUGG--GCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 16005 0.67 0.340574
Target:  5'- gGCGcGUGGcCGGCGcauCGAUuCCGGCCc -3'
miRNA:   3'- aUGC-CACC-GCUGCuu-GCUG-GGCCGGc -5'
28124 3' -60.3 NC_005887.1 + 28625 0.68 0.309538
Target:  5'- aGCGGgcGGCGACGccuacaaauucAGCaGCCCGGCgCGc -3'
miRNA:   3'- aUGCCa-CCGCUGC-----------UUGcUGGGCCG-GC- -5'
28124 3' -60.3 NC_005887.1 + 24636 0.68 0.302123
Target:  5'- cGCaGGUgugaagcugacGGCGAucaUGGGCG-CCCGGCCGa -3'
miRNA:   3'- aUG-CCA-----------CCGCU---GCUUGCuGGGCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 10333 0.68 0.29269
Target:  5'- cACGGUcugcccguugaccuGGCGGCGGACGAUCacccacaGGUCa -3'
miRNA:   3'- aUGCCA--------------CCGCUGCUUGCUGGg------CCGGc -5'
28124 3' -60.3 NC_005887.1 + 14732 0.69 0.276568
Target:  5'- gUGCGGggcagcgucgaaccGGCGACGGGCaGCaCCGcGCCGg -3'
miRNA:   3'- -AUGCCa-------------CCGCUGCUUGcUG-GGC-CGGC- -5'
28124 3' -60.3 NC_005887.1 + 15767 0.69 0.260509
Target:  5'- cACGccGGCGGCGGAaucAUCCGGCCGc -3'
miRNA:   3'- aUGCcaCCGCUGCUUgc-UGGGCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 14911 0.67 0.340574
Target:  5'- cUGCGGUGuGCacgcccGCGAACGugCCcGCCa -3'
miRNA:   3'- -AUGCCAC-CGc-----UGCUUGCugGGcCGGc -5'
28124 3' -60.3 NC_005887.1 + 28062 0.67 0.365291
Target:  5'- aACGccGGcCGACGAcgcgauuCGGCCCGaGCCGg -3'
miRNA:   3'- aUGCcaCC-GCUGCUu------GCUGGGC-CGGC- -5'
28124 3' -60.3 NC_005887.1 + 39771 0.66 0.373801
Target:  5'- --aGGUGGCGGCGGGCacucgcgauaccGACCCaauuuGCUGa -3'
miRNA:   3'- augCCACCGCUGCUUG------------CUGGGc----CGGC- -5'
28124 3' -60.3 NC_005887.1 + 27399 0.66 0.382444
Target:  5'- cUGCGcGUGGCG-CaguCGACgUGGCCGg -3'
miRNA:   3'- -AUGC-CACCGCuGcuuGCUGgGCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 39917 0.66 0.40825
Target:  5'- aGCGGUGaGCGGuCGAuugauguGCGACggCGGCCc -3'
miRNA:   3'- aUGCCAC-CGCU-GCU-------UGCUGg-GCCGGc -5'
28124 3' -60.3 NC_005887.1 + 16582 0.66 0.409159
Target:  5'- gGCGccGGCGGCGAcGCGAU-CGGCCu -3'
miRNA:   3'- aUGCcaCCGCUGCU-UGCUGgGCCGGc -5'
28124 3' -60.3 NC_005887.1 + 5907 0.66 0.409159
Target:  5'- cGCGGUGaGCucCGcuucgcccuucGCGACCCGcGCCGa -3'
miRNA:   3'- aUGCCAC-CGcuGCu----------UGCUGGGC-CGGC- -5'
28124 3' -60.3 NC_005887.1 + 13379 0.74 0.111589
Target:  5'- aUGCGGccGGCGuugcCGAACG-CCUGGCCGa -3'
miRNA:   3'- -AUGCCa-CCGCu---GCUUGCuGGGCCGGC- -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.