miRNA display CGI


Results 1 - 20 of 100 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
16251 3' -61 NC_004084.1 + 302 0.73 0.181135
Target:  5'- cGCGAaggguguaGCCC-CGAUCCUgcaugagGCCGCCGAa -3'
miRNA:   3'- -CGCUag------CGGGaGCUAGGG-------CGGCGGCU- -5'
16251 3' -61 NC_004084.1 + 477 0.67 0.417338
Target:  5'- cCGGuUCGUcgCCUCGAUCCUGCUGgCGc -3'
miRNA:   3'- cGCU-AGCG--GGAGCUAGGGCGGCgGCu -5'
16251 3' -61 NC_004084.1 + 512 0.67 0.391123
Target:  5'- aGCGGUCGgaCUUCGAUgagcgguucgCCCGCCGguUCGAg -3'
miRNA:   3'- -CGCUAGCg-GGAGCUA----------GGGCGGC--GGCU- -5'
16251 3' -61 NC_004084.1 + 718 0.67 0.391123
Target:  5'- uGCGuucaucgucUCGuCCCUCGAUauaCGCCGCCu- -3'
miRNA:   3'- -CGCu--------AGC-GGGAGCUAgg-GCGGCGGcu -5'
16251 3' -61 NC_004084.1 + 1182 0.66 0.472825
Target:  5'- gGCGAagguguUCGCCaacggCUCGAUCCUGaaCGCUGGc -3'
miRNA:   3'- -CGCU------AGCGG-----GAGCUAGGGCg-GCGGCU- -5'
16251 3' -61 NC_004084.1 + 1275 0.69 0.334285
Target:  5'- gGUGAUCGCCCgggGAUgCCCGgCuCGCuCGAu -3'
miRNA:   3'- -CGCUAGCGGGag-CUA-GGGC-G-GCG-GCU- -5'
16251 3' -61 NC_004084.1 + 1503 0.73 0.172515
Target:  5'- --cGUCGCCCUCGAgCUCGaaGCCGAu -3'
miRNA:   3'- cgcUAGCGGGAGCUaGGGCggCGGCU- -5'
16251 3' -61 NC_004084.1 + 1726 0.73 0.181599
Target:  5'- gGCGGcUGCUCgaUCGGUgaccgagaCCCGCCGCCGAa -3'
miRNA:   3'- -CGCUaGCGGG--AGCUA--------GGGCGGCGGCU- -5'
16251 3' -61 NC_004084.1 + 1785 0.67 0.435398
Target:  5'- gGUGGUCGUUCUgagccaCGAUCCgGCgaacuCGCCGAc -3'
miRNA:   3'- -CGCUAGCGGGA------GCUAGGgCG-----GCGGCU- -5'
16251 3' -61 NC_004084.1 + 2249 0.68 0.382626
Target:  5'- -aGAUC-UCCUCGGUCuuGCCGuuGu -3'
miRNA:   3'- cgCUAGcGGGAGCUAGggCGGCggCu -5'
16251 3' -61 NC_004084.1 + 2445 0.66 0.444596
Target:  5'- gGCGAUCaGCCC-C--UCCgCGUCGCCGu -3'
miRNA:   3'- -CGCUAG-CGGGaGcuAGG-GCGGCGGCu -5'
16251 3' -61 NC_004084.1 + 2761 0.66 0.463313
Target:  5'- gGCGAUgGCCUUCGucUCCUGCgUGCaGAc -3'
miRNA:   3'- -CGCUAgCGGGAGCu-AGGGCG-GCGgCU- -5'
16251 3' -61 NC_004084.1 + 3137 0.67 0.435398
Target:  5'- uCGAUacgcaGCUgaCGAUCUacaCGCCGCCGAc -3'
miRNA:   3'- cGCUAg----CGGgaGCUAGG---GCGGCGGCU- -5'
16251 3' -61 NC_004084.1 + 5092 0.67 0.391123
Target:  5'- aGCGGUCuGCCCaggCGGg-CCGCCagcugGCCGAc -3'
miRNA:   3'- -CGCUAG-CGGGa--GCUagGGCGG-----CGGCU- -5'
16251 3' -61 NC_004084.1 + 5136 0.75 0.127442
Target:  5'- cGCGGcuggucgccaggacgUCGCCCggccCGAUCUCGUCGCCGu -3'
miRNA:   3'- -CGCU---------------AGCGGGa---GCUAGGGCGGCGGCu -5'
16251 3' -61 NC_004084.1 + 5749 0.68 0.357884
Target:  5'- aUGAUCG-CCUCGAcgacgaucuccgUCUCGCCgcaGCCGAg -3'
miRNA:   3'- cGCUAGCgGGAGCU------------AGGGCGG---CGGCU- -5'
16251 3' -61 NC_004084.1 + 6723 0.72 0.206179
Target:  5'- gGCGGUC-CCUUUGAUgCCGCCGaguCCGAu -3'
miRNA:   3'- -CGCUAGcGGGAGCUAgGGCGGC---GGCU- -5'
16251 3' -61 NC_004084.1 + 6999 0.74 0.143843
Target:  5'- aGCGuGUCGCCCUCGAaggCCUcgacggcgucgGCCGCCa- -3'
miRNA:   3'- -CGC-UAGCGGGAGCUa--GGG-----------CGGCGGcu -5'
16251 3' -61 NC_004084.1 + 7096 0.68 0.366006
Target:  5'- cGCGggCGCaCUCGAUCgCCucgGUCGCCGu -3'
miRNA:   3'- -CGCuaGCGgGAGCUAG-GG---CGGCGGCu -5'
16251 3' -61 NC_004084.1 + 7366 0.67 0.40848
Target:  5'- cGCGGuUCGCuCCgacggUGAUCCCGCCuGCg-- -3'
miRNA:   3'- -CGCU-AGCG-GGa----GCUAGGGCGG-CGgcu -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.