miRNA display CGI


Results 1 - 20 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 + 22261 0.66 0.409159
Target:  5'- gACGGUGGCG-CGcagcaGGCGAUcggauuucucgUCGGCCu -3'
miRNA:   3'- aUGCCACCGCuGC-----UUGCUG-----------GGCCGGc -5'
28124 3' -60.3 NC_005887.1 + 20688 0.67 0.332608
Target:  5'- gACGGUGGCuACGcauGCGGuuCGGUCa -3'
miRNA:   3'- aUGCCACCGcUGCu--UGCUggGCCGGc -5'
28124 3' -60.3 NC_005887.1 + 12565 0.67 0.343798
Target:  5'- gACGGccgccggcaugcgcaUGGUGucCGc-CGACCCGGCCGc -3'
miRNA:   3'- aUGCC---------------ACCGCu-GCuuGCUGGGCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 41600 0.67 0.356916
Target:  5'- gGCGGcccagGuGCGGCGGcCGGCgCGGCCc -3'
miRNA:   3'- aUGCCa----C-CGCUGCUuGCUGgGCCGGc -5'
28124 3' -60.3 NC_005887.1 + 41719 0.67 0.356916
Target:  5'- gGCGaugacgGGCGGCGAucCGAuCCCGGCgCGc -3'
miRNA:   3'- aUGCca----CCGCUGCUu-GCU-GGGCCG-GC- -5'
28124 3' -60.3 NC_005887.1 + 5812 0.66 0.382444
Target:  5'- gACGGcGGCGAuCGAGuCGGCgCgGGUCGc -3'
miRNA:   3'- aUGCCaCCGCU-GCUU-GCUG-GgCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 31319 0.66 0.391219
Target:  5'- -cCGGUGGUcACGucccacgugcCGACCgGGCCGu -3'
miRNA:   3'- auGCCACCGcUGCuu--------GCUGGgCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 40600 0.66 0.391219
Target:  5'- cGCGGUuccuCGACGAGCGugUgUGGCCGc -3'
miRNA:   3'- aUGCCAcc--GCUGCUUGCugG-GCCGGC- -5'
28124 3' -60.3 NC_005887.1 + 24649 0.66 0.403723
Target:  5'- cACGGUGGUGA-GAAucCGcuucgacauuguccaGCCgCGGCCGg -3'
miRNA:   3'- aUGCCACCGCUgCUU--GC---------------UGG-GCCGGC- -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 + 40896 0.68 0.309538
Target:  5'- gACGGUGaCGACGAGCcGCCgaaGGCUa -3'
miRNA:   3'- aUGCCACcGCUGCUUGcUGGg--CCGGc -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 + 34389 0.71 0.176817
Target:  5'- gUGCGGccgGGCG-CGA--GGCCCGGCCu -3'
miRNA:   3'- -AUGCCa--CCGCuGCUugCUGGGCCGGc -5'
28124 3' -60.3 NC_005887.1 + 26204 0.71 0.18156
Target:  5'- aACGG-GGCGGCGGugG--CCGGCCu -3'
miRNA:   3'- aUGCCaCCGCUGCUugCugGGCCGGc -5'
28124 3' -60.3 NC_005887.1 + 30475 0.71 0.186414
Target:  5'- gGCGGUGcGCGAC--GCGGCCCGuGCg- -3'
miRNA:   3'- aUGCCAC-CGCUGcuUGCUGGGC-CGgc -5'
28124 3' -60.3 NC_005887.1 + 12430 0.69 0.241514
Target:  5'- cGCGGcGcGCGcgaucGCGAugGACCCGaGCCu -3'
miRNA:   3'- aUGCCaC-CGC-----UGCUugCUGGGC-CGGc -5'
28124 3' -60.3 NC_005887.1 + 1485 0.69 0.247714
Target:  5'- gACGGcGuGCGGCGcucgcGCGGCgCGGCCGu -3'
miRNA:   3'- aUGCCaC-CGCUGCu----UGCUGgGCCGGC- -5'
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' 
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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.