miRNA display CGI


Results 1 - 20 of 23 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
22691 3' -61.4 NC_005091.1 + 25461 0.66 0.422048
Target:  5'- gCGAGccUCGGCGGCCugcauauuauugaCGGCcauuggGAGCuGCu -3'
miRNA:   3'- -GCUC--AGCCGCCGG-------------GCCGcaa---CUCG-CG- -5'
22691 3' -61.4 NC_005091.1 + 56380 0.67 0.39648
Target:  5'- cCGAGccgcUUGGCGGCCCGGauuuacAGCGg -3'
miRNA:   3'- -GCUC----AGCCGCCGGGCCgcaac-UCGCg -5'
22691 3' -61.4 NC_005091.1 + 25086 0.67 0.379438
Target:  5'- cCGA-UCGGCGGCCacggaGGCGgucgccaucGAcGCGCc -3'
miRNA:   3'- -GCUcAGCCGCCGGg----CCGCaa-------CU-CGCG- -5'
22691 3' -61.4 NC_005091.1 + 56784 0.67 0.379438
Target:  5'- ---uUCGGCuGCCCGGCGaucUUGuAGCGg -3'
miRNA:   3'- gcucAGCCGcCGGGCCGC---AAC-UCGCg -5'
22691 3' -61.4 NC_005091.1 + 6594 0.67 0.378599
Target:  5'- gCGaAGUCGaugaucgcucgcGCGGCguccgggcugCCGGCGUUcaugcccGAGCGCg -3'
miRNA:   3'- -GC-UCAGC------------CGCCG----------GGCCGCAA-------CUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 19629 0.67 0.362894
Target:  5'- --uGUCGGCGGCgCuCGGCccgaaAGCGCa -3'
miRNA:   3'- gcuCAGCCGCCG-G-GCCGcaac-UCGCG- -5'
22691 3' -61.4 NC_005091.1 + 13609 0.68 0.346858
Target:  5'- uCGAGgaaaGCGaCCCGGCGUcGAGCaGCg -3'
miRNA:   3'- -GCUCagc-CGCcGGGCCGCAaCUCG-CG- -5'
22691 3' -61.4 NC_005091.1 + 32183 0.68 0.34607
Target:  5'- gGAGUCGGCGcggacccGgCCGGCGgcaAGgGCa -3'
miRNA:   3'- gCUCAGCCGC-------CgGGCCGCaacUCgCG- -5'
22691 3' -61.4 NC_005091.1 + 55078 0.69 0.294791
Target:  5'- aCGGGauacCGGCGggccGCCCGGCcGgacgagGGGCGCa -3'
miRNA:   3'- -GCUCa---GCCGC----CGGGCCG-Caa----CUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 18977 0.69 0.294791
Target:  5'- gCGAuGcUCGGCGGaaucgugCCGGCGUuccgGGGCGUc -3'
miRNA:   3'- -GCU-C-AGCCGCCg------GGCCGCAa---CUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 50452 0.69 0.281078
Target:  5'- gCGAcGcUUGGCGGCCCGcGCGUUcGAaaGCa -3'
miRNA:   3'- -GCU-C-AGCCGCCGGGC-CGCAA-CUcgCG- -5'
22691 3' -61.4 NC_005091.1 + 6023 0.69 0.274413
Target:  5'- aCGAG--GGCGGCgCGGaCGUUcGGGCGUu -3'
miRNA:   3'- -GCUCagCCGCCGgGCC-GCAA-CUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 622 0.7 0.257678
Target:  5'- gGAGgauaUGGCGGuagacguucaggauuCCCGGCcgcgugccugcGUUGAGCGCu -3'
miRNA:   3'- gCUCa---GCCGCC---------------GGGCCG-----------CAACUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 58016 0.7 0.257678
Target:  5'- gGAGgauaUGGCGGuagacguucaggauuCCCGGCcgcgugccugcGUUGAGCGCu -3'
miRNA:   3'- gCUCa---GCCGCC---------------GGGCCG-----------CAACUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 5083 0.7 0.255179
Target:  5'- gGGGUUGGCuGCCCcugcggGGCGUgacaUGGGCGg -3'
miRNA:   3'- gCUCAGCCGcCGGG------CCGCA----ACUCGCg -5'
22691 3' -61.4 NC_005091.1 + 9778 0.7 0.237064
Target:  5'- uGGG-CGGCugaaGGCCCGGuCGaUGAGuCGCu -3'
miRNA:   3'- gCUCaGCCG----CCGGGCC-GCaACUC-GCG- -5'
22691 3' -61.4 NC_005091.1 + 52110 0.71 0.225595
Target:  5'- uGAaaaGGCGGCcgucgCCGGCGcgGGGCGCg -3'
miRNA:   3'- gCUcagCCGCCG-----GGCCGCaaCUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 57780 0.72 0.189113
Target:  5'- uCGuGaaGGCGGCCaagCGGCGgggaGAGCGCg -3'
miRNA:   3'- -GCuCagCCGCCGG---GCCGCaa--CUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 386 0.72 0.189113
Target:  5'- uCGuGaaGGCGGCCaagCGGCGgggaGAGCGCg -3'
miRNA:   3'- -GCuCagCCGCCGG---GCCGCaa--CUCGCG- -5'
22691 3' -61.4 NC_005091.1 + 9361 0.72 0.184346
Target:  5'- -cGGUCGGCGGCCa-GCGgcGAGCa- -3'
miRNA:   3'- gcUCAGCCGCCGGgcCGCaaCUCGcg -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.