miRNA display CGI


Results 1 - 20 of 78 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
28054 5' -58.3 NC_005887.1 + 14309 1.08 0.000462
Target:  5'- gCGCCUGCUCGAUCACGCCGACGCAGUg -3'
miRNA:   3'- -GCGGACGAGCUAGUGCGGCUGCGUCA- -5'
28054 5' -58.3 NC_005887.1 + 33898 0.86 0.020914
Target:  5'- gCGCCgggcGCUCGAUCGCGuuGACGCGGa -3'
miRNA:   3'- -GCGGa---CGAGCUAGUGCggCUGCGUCa -5'
28054 5' -58.3 NC_005887.1 + 42058 0.76 0.10353
Target:  5'- gGCCUcGCU-GAUCACGCC-ACGCAGUu -3'
miRNA:   3'- gCGGA-CGAgCUAGUGCGGcUGCGUCA- -5'
28054 5' -58.3 NC_005887.1 + 28328 0.75 0.119175
Target:  5'- aGCCUGUugUCGGcgUCuGCGCCGGCGCGGc -3'
miRNA:   3'- gCGGACG--AGCU--AG-UGCGGCUGCGUCa -5'
28054 5' -58.3 NC_005887.1 + 23909 0.75 0.129592
Target:  5'- uCGCCUGCgUCGAgaUCGCGCCGAU-CAGc -3'
miRNA:   3'- -GCGGACG-AGCU--AGUGCGGCUGcGUCa -5'
28054 5' -58.3 NC_005887.1 + 13985 0.74 0.140456
Target:  5'- aGCCgucgacgcguucgUGCUCGAagccaaugcCGCGCCGGCGCAGa -3'
miRNA:   3'- gCGG-------------ACGAGCUa--------GUGCGGCUGCGUCa -5'
28054 5' -58.3 NC_005887.1 + 17397 0.74 0.140845
Target:  5'- aCGCgCUGgUCGAUCACGUCGGCgGCAu- -3'
miRNA:   3'- -GCG-GACgAGCUAGUGCGGCUG-CGUca -5'
28054 5' -58.3 NC_005887.1 + 27900 0.74 0.157241
Target:  5'- aCGCCuUGCaCGGUCugGUCGAuCGCGGUu -3'
miRNA:   3'- -GCGG-ACGaGCUAGugCGGCU-GCGUCA- -5'
28054 5' -58.3 NC_005887.1 + 41452 0.73 0.175343
Target:  5'- uGCgCUGCUCGG-CACGCCG-CGCGa- -3'
miRNA:   3'- gCG-GACGAGCUaGUGCGGCuGCGUca -5'
28054 5' -58.3 NC_005887.1 + 28794 0.72 0.195277
Target:  5'- gGCCUGCUCGGgcggcagcgCAuCGCCGAuCGCAu- -3'
miRNA:   3'- gCGGACGAGCUa--------GU-GCGGCU-GCGUca -5'
28054 5' -58.3 NC_005887.1 + 14994 0.72 0.211503
Target:  5'- uGCCgacGCUCGucugCGCGCCGcugcgcgugGCGCAGUc -3'
miRNA:   3'- gCGGa--CGAGCua--GUGCGGC---------UGCGUCA- -5'
28054 5' -58.3 NC_005887.1 + 41470 0.72 0.217164
Target:  5'- cCGCCUGaCUCG-UC-CGgCGGCGCGGg -3'
miRNA:   3'- -GCGGAC-GAGCuAGuGCgGCUGCGUCa -5'
28054 5' -58.3 NC_005887.1 + 30886 0.71 0.221204
Target:  5'- gCGCgaGCUCGGUCACGuuGuucggguaguuccaGCGCGGc -3'
miRNA:   3'- -GCGgaCGAGCUAGUGCggC--------------UGCGUCa -5'
28054 5' -58.3 NC_005887.1 + 40161 0.71 0.222955
Target:  5'- uGCgCUGCcCGAUCACcgcgGCCGGCGuCAGg -3'
miRNA:   3'- gCG-GACGaGCUAGUG----CGGCUGC-GUCa -5'
28054 5' -58.3 NC_005887.1 + 27211 0.71 0.228876
Target:  5'- gCGCCUGCauggggUCGGUCggguccgugACGCCGuacuuGCGCAGg -3'
miRNA:   3'- -GCGGACG------AGCUAG---------UGCGGC-----UGCGUCa -5'
28054 5' -58.3 NC_005887.1 + 13415 0.71 0.234929
Target:  5'- cCGCCagUGCUCGcugUGCGUCGACGCAa- -3'
miRNA:   3'- -GCGG--ACGAGCua-GUGCGGCUGCGUca -5'
28054 5' -58.3 NC_005887.1 + 27787 0.71 0.234929
Target:  5'- gCGCCaUGa-CGAcgGCGCCGACGCAGg -3'
miRNA:   3'- -GCGG-ACgaGCUagUGCGGCUGCGUCa -5'
28054 5' -58.3 NC_005887.1 + 11640 0.71 0.234929
Target:  5'- uGCCgaGCUCGA-CGCGUugcaGACGCGGUa -3'
miRNA:   3'- gCGGa-CGAGCUaGUGCGg---CUGCGUCA- -5'
28054 5' -58.3 NC_005887.1 + 26636 0.71 0.241117
Target:  5'- gCGUCaGCUCcuUCACGCCGGCgGCGGa -3'
miRNA:   3'- -GCGGaCGAGcuAGUGCGGCUG-CGUCa -5'
28054 5' -58.3 NC_005887.1 + 24780 0.71 0.241117
Target:  5'- gGCgUGUUCG-UCGCGCCGgucACGUAGUu -3'
miRNA:   3'- gCGgACGAGCuAGUGCGGC---UGCGUCA- -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.