miRNA display CGI


Results 1 - 20 of 53 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
10963 5' -59.2 NC_002794.1 + 1816 0.66 0.824671
Target:  5'- cGAGGCaCCCGUCGgCcuuauacgGGGUCcg-GGGGCg -3'
miRNA:   3'- -UUCCG-GGGCAGC-G--------UCCAGuugUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 19443 0.7 0.567663
Target:  5'- cAGGCCCCGa-GCGGGcacgagcggcggcggCGGCGGGACc -3'
miRNA:   3'- uUCCGGGGCagCGUCCa--------------GUUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 20469 0.67 0.72416
Target:  5'- -cGGCCCCGaagacgUGCAcguGGUCAucaucggGCAGGAUc -3'
miRNA:   3'- uuCCGGGGCa-----GCGU---CCAGU-------UGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 21900 0.69 0.626294
Target:  5'- -cGGCCUgCGUCGguGGUggCGGCGGaGACg -3'
miRNA:   3'- uuCCGGG-GCAGCguCCA--GUUGUC-CUG- -5'
10963 5' -59.2 NC_002794.1 + 29831 0.68 0.68604
Target:  5'- cAGGUCCgGggucgUGCAGGg-GGCAGGACg -3'
miRNA:   3'- uUCCGGGgCa----GCGUCCagUUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 30068 0.71 0.527721
Target:  5'- cGGGGUCCgGUCGCccGGUCGACGaGGCg -3'
miRNA:   3'- -UUCCGGGgCAGCGu-CCAGUUGUcCUG- -5'
10963 5' -59.2 NC_002794.1 + 36834 0.74 0.375926
Target:  5'- cAGGCCCCGgaccgucUCGUAGGUguGCGGaGACc -3'
miRNA:   3'- uUCCGGGGC-------AGCGUCCAguUGUC-CUG- -5'
10963 5' -59.2 NC_002794.1 + 36979 0.66 0.790253
Target:  5'- gGAGGaUCgCG-CGCAGGUCGGCGaggcGGACc -3'
miRNA:   3'- -UUCC-GGgGCaGCGUCCAGUUGU----CCUG- -5'
10963 5' -59.2 NC_002794.1 + 40995 0.66 0.807765
Target:  5'- uGAGGUCCgCGUuccCGCAGGaUGGCGGaGACg -3'
miRNA:   3'- -UUCCGGG-GCA---GCGUCCaGUUGUC-CUG- -5'
10963 5' -59.2 NC_002794.1 + 43591 0.7 0.576541
Target:  5'- -cGGCCaCCGUCagguugugcacCAGG-CAGCAGGACg -3'
miRNA:   3'- uuCCGG-GGCAGc----------GUCCaGUUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 44632 0.69 0.65625
Target:  5'- cGGGCUCCGUguccgcCGCAggauguucGGUCGACAGGuCc -3'
miRNA:   3'- uUCCGGGGCA------GCGU--------CCAGUUGUCCuG- -5'
10963 5' -59.2 NC_002794.1 + 45446 0.68 0.666209
Target:  5'- -cGGaCCCgGUCGCGcGUCAGCGGGcCc -3'
miRNA:   3'- uuCC-GGGgCAGCGUcCAGUUGUCCuG- -5'
10963 5' -59.2 NC_002794.1 + 47418 0.67 0.752729
Target:  5'- -cGGCgCCGUCGCGcGGagcgccaggcguuUCAggACGGGGCa -3'
miRNA:   3'- uuCCGgGGCAGCGU-CC-------------AGU--UGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 50512 0.74 0.345641
Target:  5'- -cGaGCCCCaGcUCGCAGGUCAACGGGu- -3'
miRNA:   3'- uuC-CGGGG-C-AGCGUCCAGUUGUCCug -5'
10963 5' -59.2 NC_002794.1 + 54274 0.68 0.695896
Target:  5'- cGGGCCaaaCCGU-GCAGacgCAGCAGGGCg -3'
miRNA:   3'- uUCCGG---GGCAgCGUCca-GUUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 58063 0.67 0.734726
Target:  5'- -cGGCCCCG--GC-GG-CGGCGGGACg -3'
miRNA:   3'- uuCCGGGGCagCGuCCaGUUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 67557 0.66 0.790253
Target:  5'- cGGGCCgCGcCGCAccaaagccgaccGGUCGGC-GGACu -3'
miRNA:   3'- uUCCGGgGCaGCGU------------CCAGUUGuCCUG- -5'
10963 5' -59.2 NC_002794.1 + 71816 0.72 0.470408
Target:  5'- cGAGGCCgccUCGUCGCgAGGaucgccguccccgUCGACGGGACc -3'
miRNA:   3'- -UUCCGG---GGCAGCG-UCC-------------AGUUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 77189 0.69 0.606331
Target:  5'- aAGGGUccuccuccgccgCCCGUCGCAGGUgcgcuugcaCAACcGGACc -3'
miRNA:   3'- -UUCCG------------GGGCAGCGUCCA---------GUUGuCCUG- -5'
10963 5' -59.2 NC_002794.1 + 86917 0.66 0.781289
Target:  5'- -cGGUgacgCCCGUgGCGGGcaGGCGGGGCg -3'
miRNA:   3'- uuCCG----GGGCAgCGUCCagUUGUCCUG- -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.