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
29090 3' -54.2 NC_006146.1 + 120501 1.14 0.00243
Target:  5'- gCCCGUGGAGGCUAUUUAUCCCGCCGCg -3'
miRNA:   3'- -GGGCACCUCCGAUAAAUAGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 152027 0.68 0.913406
Target:  5'- --aGUGGGGGCUGagg--CCC-CCGCa -3'
miRNA:   3'- gggCACCUCCGAUaaauaGGGcGGCG- -5'
29090 3' -54.2 NC_006146.1 + 61503 0.68 0.929921
Target:  5'- cUCCGaGGAGGCc------CCUGCCGCc -3'
miRNA:   3'- -GGGCaCCUCCGauaaauaGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 54951 0.66 0.97563
Target:  5'- gCCCGcGG-GGCgaccgccgCCGCCGCu -3'
miRNA:   3'- -GGGCaCCuCCGauaaauagGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 54608 0.73 0.68638
Target:  5'- aCCGcGGGGGCgcc--AUCCgGCCGCc -3'
miRNA:   3'- gGGCaCCUCCGauaaaUAGGgCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 34069 0.73 0.71631
Target:  5'- uCCCGUGGcacgGGGCcggggGUCCCggggggcaGCCGCg -3'
miRNA:   3'- -GGGCACC----UCCGauaaaUAGGG--------CGGCG- -5'
29090 3' -54.2 NC_006146.1 + 89200 0.71 0.81873
Target:  5'- gCCCGccacUGGGGacuuccccagauGUUuccccaAUUUGUCCCGCCGCu -3'
miRNA:   3'- -GGGC----ACCUC------------CGA------UAAAUAGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 130491 0.71 0.81873
Target:  5'- cCCCG-GGuGGCUAcUUUG-CCC-CCGCg -3'
miRNA:   3'- -GGGCaCCuCCGAU-AAAUaGGGcGGCG- -5'
29090 3' -54.2 NC_006146.1 + 62831 0.7 0.866066
Target:  5'- gCCUGUGGcccAGGCUggccaucgagauaGUUUAUCuCUGcCCGCu -3'
miRNA:   3'- -GGGCACC---UCCGA-------------UAAAUAG-GGC-GGCG- -5'
29090 3' -54.2 NC_006146.1 + 70754 0.68 0.911044
Target:  5'- gCCGUGGAcGGCgugaauaCCCGCC-Cg -3'
miRNA:   3'- gGGCACCU-CCGauaaauaGGGCGGcG- -5'
29090 3' -54.2 NC_006146.1 + 137902 0.69 0.880534
Target:  5'- cCCCGUGGAcagGGCcggggGUUCCgggggcaGCCGCg -3'
miRNA:   3'- -GGGCACCU---CCGauaaaUAGGG-------CGGCG- -5'
29090 3' -54.2 NC_006146.1 + 50360 0.7 0.843622
Target:  5'- gCCUGgGGAucuuGGCcagcaGUCCCGCCGCc -3'
miRNA:   3'- -GGGCaCCU----CCGauaaaUAGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 55707 0.77 0.46799
Target:  5'- gCCG-GGGGGCUcug---CCCGCCGCu -3'
miRNA:   3'- gGGCaCCUCCGAuaaauaGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 154031 0.69 0.888122
Target:  5'- gCCCGcucguUGaAGGUcuccuUGUUUGUCCCGUCGUa -3'
miRNA:   3'- -GGGC-----ACcUCCG-----AUAAAUAGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 155760 0.75 0.595092
Target:  5'- gCCCGaGGA-GCUGUagAcCCCGCCGCa -3'
miRNA:   3'- -GGGCaCCUcCGAUAaaUaGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 57139 0.71 0.823836
Target:  5'- uUCG-GGGGGCUGguggccgaCCGCCGCu -3'
miRNA:   3'- gGGCaCCUCCGAUaaauag--GGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 41948 0.69 0.909849
Target:  5'- gCCCGUGGAGcGCUAcuuugccaucaagaaUUauguUCCCGgccucgacCCGCa -3'
miRNA:   3'- -GGGCACCUC-CGAU---------------AAau--AGGGC--------GGCG- -5'
29090 3' -54.2 NC_006146.1 + 49877 0.68 0.913406
Target:  5'- aCCGUcgGGAGGCUGgg-GUCCU-CCGg -3'
miRNA:   3'- gGGCA--CCUCCGAUaaaUAGGGcGGCg -5'
29090 3' -54.2 NC_006146.1 + 52924 0.74 0.656051
Target:  5'- cCCCG-GGGGcGCUGgccUcgUCCGCCGCc -3'
miRNA:   3'- -GGGCaCCUC-CGAUaa-AuaGGGCGGCG- -5'
29090 3' -54.2 NC_006146.1 + 41607 0.71 0.81873
Target:  5'- gCCCG-GGGGGCUGg----UCCGCUGg -3'
miRNA:   3'- -GGGCaCCUCCGAUaaauaGGGCGGCg -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.