miRNA display CGI


Results 1 - 12 of 12 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
21749 3' -59.9 NC_004813.1 + 38695 1.1 0.000311
Target:  5'- aCCAGCGCGCCCACGGCUGUUGCCACAu -3'
miRNA:   3'- -GGUCGCGCGGGUGCCGACAACGGUGU- -5'
21749 3' -59.9 NC_004813.1 + 31990 0.76 0.103744
Target:  5'- aCCAGCacucCGCaCACGGCUG-UGCCACAu -3'
miRNA:   3'- -GGUCGc---GCGgGUGCCGACaACGGUGU- -5'
21749 3' -59.9 NC_004813.1 + 31782 0.69 0.332732
Target:  5'- gCAGUGCGUCCgGCGGCUGa-GUCugAu -3'
miRNA:   3'- gGUCGCGCGGG-UGCCGACaaCGGugU- -5'
21749 3' -59.9 NC_004813.1 + 31781 0.69 0.332732
Target:  5'- uCCAGCGCuCCgCACGGaug--GCCACGc -3'
miRNA:   3'- -GGUCGCGcGG-GUGCCgacaaCGGUGU- -5'
21749 3' -59.9 NC_004813.1 + 46480 0.68 0.348679
Target:  5'- aCAGCugauuccccuGCGCCacaaauaACGGCgugcUGUUGCCGCu -3'
miRNA:   3'- gGUCG----------CGCGGg------UGCCG----ACAACGGUGu -5'
21749 3' -59.9 NC_004813.1 + 25979 0.68 0.364327
Target:  5'- -gAGCGCGUugUCACGGUaaugguuUGUUGCCAg- -3'
miRNA:   3'- ggUCGCGCG--GGUGCCG-------ACAACGGUgu -5'
21749 3' -59.9 NC_004813.1 + 37945 0.67 0.408673
Target:  5'- cCCGGCGCuGCuCCcUGGC---UGCCGCAg -3'
miRNA:   3'- -GGUCGCG-CG-GGuGCCGacaACGGUGU- -5'
21749 3' -59.9 NC_004813.1 + 24330 0.66 0.445723
Target:  5'- gUCGGCuGcCGUUCugGcGCUGaUUGCCGCAg -3'
miRNA:   3'- -GGUCG-C-GCGGGugC-CGAC-AACGGUGU- -5'
21749 3' -59.9 NC_004813.1 + 30604 0.66 0.463967
Target:  5'- uCCAGCguGCGCCCuuccucuGCGGCUuugGUCAUg -3'
miRNA:   3'- -GGUCG--CGCGGG-------UGCCGAcaaCGGUGu -5'
21749 3' -59.9 NC_004813.1 + 37944 0.66 0.474706
Target:  5'- aCCGGUGCGUuuGcCGGUgccuUUGCCACc -3'
miRNA:   3'- -GGUCGCGCGggU-GCCGac--AACGGUGu -5'
21749 3' -59.9 NC_004813.1 + 43848 0.66 0.483584
Target:  5'- cCCGGCGCGCCagACcGCUGUcacaccaUGUauCACAg -3'
miRNA:   3'- -GGUCGCGCGGg-UGcCGACA-------ACG--GUGU- -5'
21749 3' -59.9 NC_004813.1 + 41847 0.66 0.494542
Target:  5'- aCAGCGCaccGUCCGucuCGGUcggUGUUGCCAgCAc -3'
miRNA:   3'- gGUCGCG---CGGGU---GCCG---ACAACGGU-GU- -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.