miRNA display CGI


Results 1 - 20 of 22 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
21207 5' -59.1 NC_004778.3 + 25098 0.66 0.683716
Target:  5'- uGGGGUGCGCgGGUG-GCGGaGAGGGc -3'
miRNA:   3'- -UUUCACGCGgUCGUgCGCCgUUCCCa -5'
21207 5' -59.1 NC_004778.3 + 70276 0.66 0.673442
Target:  5'- --cGUGCG-CGGC-CGCGGCAuauuuaggcGGGGc -3'
miRNA:   3'- uuuCACGCgGUCGuGCGCCGU---------UCCCa -5'
21207 5' -59.1 NC_004778.3 + 160 0.67 0.652799
Target:  5'- ----aGCGCCAGCAUuuguuCGGCGuuGGGUa -3'
miRNA:   3'- uuucaCGCGGUCGUGc----GCCGUu-CCCA- -5'
21207 5' -59.1 NC_004778.3 + 29328 0.67 0.632089
Target:  5'- gAAGGUG-GCgCGGCGCGCG-CuGGGGUg -3'
miRNA:   3'- -UUUCACgCG-GUCGUGCGCcGuUCCCA- -5'
21207 5' -59.1 NC_004778.3 + 71165 0.67 0.621729
Target:  5'- cGGGG-GCGUUGGCGaggaaGuCGGCAAGGGUg -3'
miRNA:   3'- -UUUCaCGCGGUCGUg----C-GCCGUUCCCA- -5'
21207 5' -59.1 NC_004778.3 + 48711 0.68 0.579423
Target:  5'- --cGUGCGUguuguagUAGC-CGCGGCGAcGGGUu -3'
miRNA:   3'- uuuCACGCG-------GUCGuGCGCCGUU-CCCA- -5'
21207 5' -59.1 NC_004778.3 + 52071 0.68 0.568163
Target:  5'- --cGUGCGCauugcacCAGCGCGCGGCGcgccacaAGGa- -3'
miRNA:   3'- uuuCACGCG-------GUCGUGCGCCGU-------UCCca -5'
21207 5' -59.1 NC_004778.3 + 1681 0.68 0.549862
Target:  5'- uGGGUGCgGCCAGCAgCGCGaGCAGGc-- -3'
miRNA:   3'- uUUCACG-CGGUCGU-GCGC-CGUUCcca -5'
21207 5' -59.1 NC_004778.3 + 112088 0.68 0.539772
Target:  5'- -uGGUGUGCUccucGGUGCGCaGGUAGGGGc -3'
miRNA:   3'- uuUCACGCGG----UCGUGCG-CCGUUCCCa -5'
21207 5' -59.1 NC_004778.3 + 81772 0.68 0.539772
Target:  5'- ---cUGCGCCGGUagguGCGCGGCcugccGGGGc -3'
miRNA:   3'- uuucACGCGGUCG----UGCGCCGu----UCCCa -5'
21207 5' -59.1 NC_004778.3 + 71249 0.69 0.509907
Target:  5'- cGAGG-GUGUCGGCgaagGCGuUGGCGAGGGUg -3'
miRNA:   3'- -UUUCaCGCGGUCG----UGC-GCCGUUCCCA- -5'
21207 5' -59.1 NC_004778.3 + 39215 0.69 0.500104
Target:  5'- --cGUGCGUCAGCGCG-GaGCAGGGcGa -3'
miRNA:   3'- uuuCACGCGGUCGUGCgC-CGUUCC-Ca -5'
21207 5' -59.1 NC_004778.3 + 71310 0.69 0.500104
Target:  5'- gAGGGUGUcgGCgGGgGCGUaGGCGAGGGUg -3'
miRNA:   3'- -UUUCACG--CGgUCgUGCG-CCGUUCCCA- -5'
21207 5' -59.1 NC_004778.3 + 71382 0.69 0.500104
Target:  5'- gAGGGUGUcgGCgGGgGCGUaGGCGAGGGUg -3'
miRNA:   3'- -UUUCACG--CGgUCgUGCG-CCGUUCCCA- -5'
21207 5' -59.1 NC_004778.3 + 71430 0.69 0.500104
Target:  5'- gAGGGUGUcgGCgGGgGCGUaGGCGAGGGUg -3'
miRNA:   3'- -UUUCACG--CGgUCgUGCG-CCGUUCCCA- -5'
21207 5' -59.1 NC_004778.3 + 66953 0.7 0.471218
Target:  5'- aAGAGcUGCGCCAGaacaGCGUGGuCGAGGcGg -3'
miRNA:   3'- -UUUC-ACGCGGUCg---UGCGCC-GUUCC-Ca -5'
21207 5' -59.1 NC_004778.3 + 46695 0.7 0.461778
Target:  5'- ----gGCGUCGGaauuCGCGGCGGGGGg -3'
miRNA:   3'- uuucaCGCGGUCgu--GCGCCGUUCCCa -5'
21207 5' -59.1 NC_004778.3 + 10836 0.7 0.452438
Target:  5'- ----aGCGCCuggGGCGCGuuGCGAGGGUu -3'
miRNA:   3'- uuucaCGCGG---UCGUGCgcCGUUCCCA- -5'
21207 5' -59.1 NC_004778.3 + 80478 0.71 0.37339
Target:  5'- --cGUGCGCUGGCAgCGCaucgaccccgugGGCGAGGGc -3'
miRNA:   3'- uuuCACGCGGUCGU-GCG------------CCGUUCCCa -5'
21207 5' -59.1 NC_004778.3 + 129132 0.72 0.341394
Target:  5'- ---uUGCGCCAGCACGCGcuCAGGuGGg -3'
miRNA:   3'- uuucACGCGGUCGUGCGCc-GUUC-CCa -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.