miRNA display CGI


Results 1 - 20 of 48 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
12364 5' -62.3 NC_003324.1 + 1591 0.68 0.271862
Target:  5'- -gCCGCCgGAUCcu-CGCuGGCCCGGCc -3'
miRNA:   3'- uaGGCGG-CUAGcucGCGcUCGGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 2836 0.69 0.228885
Target:  5'- uUUCGCCGggCGAGgGgGAGCgucaaCGGCc -3'
miRNA:   3'- uAGGCGGCuaGCUCgCgCUCGg----GCCG- -5'
12364 5' -62.3 NC_003324.1 + 4554 0.71 0.177574
Target:  5'- -gCCGCgccgUGAUCGAGCGCGcgcaGGUCCaGGCc -3'
miRNA:   3'- uaGGCG----GCUAGCUCGCGC----UCGGG-CCG- -5'
12364 5' -62.3 NC_003324.1 + 5965 0.7 0.21176
Target:  5'- -cCCGCCGAaUGgcuaugcAGCGCGAGCaCGGUg -3'
miRNA:   3'- uaGGCGGCUaGC-------UCGCGCUCGgGCCG- -5'
12364 5' -62.3 NC_003324.1 + 8192 0.68 0.285278
Target:  5'- -aCUGCCcggCG-GCGCGcGCCUGGCa -3'
miRNA:   3'- uaGGCGGcuaGCuCGCGCuCGGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 8220 0.76 0.077669
Target:  5'- -aUCGCa-GUCGAGCGCGcagcuGCCCGGCg -3'
miRNA:   3'- uaGGCGgcUAGCUCGCGCu----CGGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 10722 0.68 0.265346
Target:  5'- gGUCuCGCCaGUCGuAGCGacacgGAGCCaCGGCc -3'
miRNA:   3'- -UAG-GCGGcUAGC-UCGCg----CUCGG-GCCG- -5'
12364 5' -62.3 NC_003324.1 + 11842 0.66 0.393724
Target:  5'- uGUCCuGCgCGAcCGGGC-CGGGCaCGGCa -3'
miRNA:   3'- -UAGG-CG-GCUaGCUCGcGCUCGgGCCG- -5'
12364 5' -62.3 NC_003324.1 + 12100 0.69 0.252695
Target:  5'- gGUCUGUaccUGAUCgcgGAGCGCGcGGCCuCGGCc -3'
miRNA:   3'- -UAGGCG---GCUAG---CUCGCGC-UCGG-GCCG- -5'
12364 5' -62.3 NC_003324.1 + 14072 0.66 0.384293
Target:  5'- gAUCCGCaGAUCGgcaaagcAGCGCucaaggaagcgGAGaCCGGCg -3'
miRNA:   3'- -UAGGCGgCUAGC-------UCGCG-----------CUCgGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 14533 0.73 0.124284
Target:  5'- gGUCCGCCGAUgcuuggacgccggcaUGGGCccaGAGCCgGGCg -3'
miRNA:   3'- -UAGGCGGCUA---------------GCUCGcg-CUCGGgCCG- -5'
12364 5' -62.3 NC_003324.1 + 14812 0.69 0.258958
Target:  5'- -aUUGCUGAUUGAGUGuCGAGCCCa-- -3'
miRNA:   3'- uaGGCGGCUAGCUCGC-GCUCGGGccg -5'
12364 5' -62.3 NC_003324.1 + 16241 0.66 0.385144
Target:  5'- -cCCGCC--UCGGuGCcaGCGAuGCCUGGCg -3'
miRNA:   3'- uaGGCGGcuAGCU-CG--CGCU-CGGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 16522 0.67 0.344142
Target:  5'- ---aGCgGAUCGGccuGUGCGuGCUCGGCg -3'
miRNA:   3'- uaggCGgCUAGCU---CGCGCuCGGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 17430 0.69 0.252695
Target:  5'- -cUCGUCGGUCauGAcGCG-GAGCCCGGUg -3'
miRNA:   3'- uaGGCGGCUAG--CU-CGCgCUCGGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 17719 0.73 0.126285
Target:  5'- -gUCGUCGAuauccUCGGGCcCGAGCUCGGCg -3'
miRNA:   3'- uaGGCGGCU-----AGCUCGcGCUCGGGCCG- -5'
12364 5' -62.3 NC_003324.1 + 18272 0.67 0.344142
Target:  5'- -aCCGCUGAcggaaUCGGccgacGCGCGGGCaaucgcugccCCGGCc -3'
miRNA:   3'- uaGGCGGCU-----AGCU-----CGCGCUCG----------GGCCG- -5'
12364 5' -62.3 NC_003324.1 + 18855 0.69 0.252695
Target:  5'- -gUUGCCGAgaUCGAGgagcugcuCGUGGGCuCCGGCg -3'
miRNA:   3'- uaGGCGGCU--AGCUC--------GCGCUCG-GGCCG- -5'
12364 5' -62.3 NC_003324.1 + 19926 0.67 0.328643
Target:  5'- aAUUCGCCGGUCuGAuaGaCGAGCCCaGUc -3'
miRNA:   3'- -UAGGCGGCUAG-CUcgC-GCUCGGGcCG- -5'
12364 5' -62.3 NC_003324.1 + 20524 0.69 0.223236
Target:  5'- -cCCGCCGAcCGcaAGCGCccaucAGCgCCGGCa -3'
miRNA:   3'- uaGGCGGCUaGC--UCGCGc----UCG-GGCCG- -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.