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 + 50512 0.74 0.345641
Target:  5'- -cGaGCCCCaGcUCGCAGGUCAACGGGu- -3'
miRNA:   3'- uuC-CGGGG-C-AGCGUCCAGUUGUCCug -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 + 130004 0.73 0.40964
Target:  5'- -cGGCCCCGgagcgUGCGGGUCGGCcucgcgcgAGGAg -3'
miRNA:   3'- uuCCGGGGCa----GCGUCCAGUUG--------UCCUg -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 + 188521 0.71 0.48887
Target:  5'- aAAGGCCCCGaucucgaagCGCAGGUgucgcggCGGCGGGuACu -3'
miRNA:   3'- -UUCCGGGGCa--------GCGUCCA-------GUUGUCC-UG- -5'
10963 5' -59.2 NC_002794.1 + 140022 0.71 0.518131
Target:  5'- gGAGGCCgCGgccccCGCGGG-CGGCGGGAg -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 + 155779 0.7 0.546115
Target:  5'- cAGGCaCCGUaucaGCAGGUUcagaugcgauuguGACAGGACg -3'
miRNA:   3'- uUCCGgGGCAg---CGUCCAG-------------UUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 147148 0.7 0.556859
Target:  5'- -cGGCCCCGgggcCGCgaGGGcCAGCuGGACc -3'
miRNA:   3'- uuCCGGGGCa---GCG--UCCaGUUGuCCUG- -5'
10963 5' -59.2 NC_002794.1 + 116810 0.7 0.566678
Target:  5'- cGGGCgCCGUagCGCGGGUCGcucugguccCGGGACg -3'
miRNA:   3'- uUCCGgGGCA--GCGUCCAGUu--------GUCCUG- -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 + 43591 0.7 0.576541
Target:  5'- -cGGCCaCCGUCagguugugcacCAGG-CAGCAGGACg -3'
miRNA:   3'- uuCCGG-GGCAGc----------GUCCaGUUGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 116867 0.7 0.596374
Target:  5'- -cGGCCgUGUCGCGcucGUCAGgGGGGCg -3'
miRNA:   3'- uuCCGGgGCAGCGUc--CAGUUgUCCUG- -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 + 21900 0.69 0.626294
Target:  5'- -cGGCCUgCGUCGguGGUggCGGCGGaGACg -3'
miRNA:   3'- uuCCGGG-GCAGCguCCA--GUUGUC-CUG- -5'
10963 5' -59.2 NC_002794.1 + 112089 0.69 0.626294
Target:  5'- cAGGUCCCGUUGCgcguccAGGcgCGGcCGGGACg -3'
miRNA:   3'- uUCCGGGGCAGCG------UCCa-GUU-GUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 101033 0.69 0.645274
Target:  5'- cGGGCCggG-CGCGGGUCGgccgcuacugcguGCAGGACg -3'
miRNA:   3'- uUCCGGggCaGCGUCCAGU-------------UGUCCUG- -5'
10963 5' -59.2 NC_002794.1 + 105780 0.69 0.65625
Target:  5'- uGGGCCgCGUCGaUAGGUCGgucuCGGaGACg -3'
miRNA:   3'- uUCCGGgGCAGC-GUCCAGUu---GUC-CUG- -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 + 146904 0.68 0.666209
Target:  5'- aAAGGCgCUCGggCGCGGGgaUCGGCcGGACg -3'
miRNA:   3'- -UUCCG-GGGCa-GCGUCC--AGUUGuCCUG- -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.