miRNA display CGI


Results 1 - 20 of 52 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
16393 3' -54.5 NC_004084.1 + 48113 0.66 0.807284
Target:  5'- uUCGACGucgaGCUCGuCGUCgUCCaggUCGUCGACc -3'
miRNA:   3'- -AGCUGU----UGAGC-GCAG-AGG---AGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 7571 0.66 0.807284
Target:  5'- gUCGGcCGACUUGCucGUCUCgccUUCGCCGuCg -3'
miRNA:   3'- -AGCU-GUUGAGCG--CAGAG---GAGUGGCuG- -5'
16393 3' -54.5 NC_004084.1 + 28120 0.66 0.806339
Target:  5'- cUCGACGAg-CGCGUCaaugacgUCCUCGucUCGAUa -3'
miRNA:   3'- -AGCUGUUgaGCGCAG-------AGGAGU--GGCUG- -5'
16393 3' -54.5 NC_004084.1 + 30892 0.66 0.797753
Target:  5'- cUCGACAACggCGCGaUCUCC---CCGGa -3'
miRNA:   3'- -AGCUGUUGa-GCGC-AGAGGaguGGCUg -5'
16393 3' -54.5 NC_004084.1 + 57869 0.66 0.797753
Target:  5'- cUGGCGAUcucgUCGUGgagCUCCUCGaCGGCg -3'
miRNA:   3'- aGCUGUUG----AGCGCa--GAGGAGUgGCUG- -5'
16393 3' -54.5 NC_004084.1 + 20763 0.66 0.797753
Target:  5'- cCGGCgggaAugUUG-GUCUCUUCGCCGAg -3'
miRNA:   3'- aGCUG----UugAGCgCAGAGGAGUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 48997 0.66 0.788049
Target:  5'- cCGAgAGCgCGUG-CUCgUCAUCGGCa -3'
miRNA:   3'- aGCUgUUGaGCGCaGAGgAGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 47535 0.66 0.788049
Target:  5'- gUCGACAucgaccauuccgGgUCGaaucggauCGUCUUgUCGCCGACg -3'
miRNA:   3'- -AGCUGU------------UgAGC--------GCAGAGgAGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 18247 0.66 0.788049
Target:  5'- gUGACGuGCUCGa-UCUCCaucguccacUCGCCGGCg -3'
miRNA:   3'- aGCUGU-UGAGCgcAGAGG---------AGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 12026 0.66 0.788049
Target:  5'- aCGuCAGCUCGauCGagUCCUCGCUGGu -3'
miRNA:   3'- aGCuGUUGAGC--GCagAGGAGUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 39649 0.66 0.78707
Target:  5'- gCGACGccgaggaACUCGCGcgCUCCaaccCCGACu -3'
miRNA:   3'- aGCUGU-------UGAGCGCa-GAGGagu-GGCUG- -5'
16393 3' -54.5 NC_004084.1 + 32427 0.66 0.778185
Target:  5'- aUCGcGCGgauGCUCGUG-CUCUUCGCCuGCg -3'
miRNA:   3'- -AGC-UGU---UGAGCGCaGAGGAGUGGcUG- -5'
16393 3' -54.5 NC_004084.1 + 43075 0.66 0.778185
Target:  5'- cUCGA----UCGCGUCgaguUCCUCAUCGAg -3'
miRNA:   3'- -AGCUguugAGCGCAG----AGGAGUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 57336 0.66 0.768172
Target:  5'- -aGACcACcuUCGCGUCa--UCGCCGACg -3'
miRNA:   3'- agCUGuUG--AGCGCAGaggAGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 50938 0.66 0.75802
Target:  5'- gUCGACGAC-CcUGaUCUCCUCcUCGACg -3'
miRNA:   3'- -AGCUGUUGaGcGC-AGAGGAGuGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 53187 0.67 0.747741
Target:  5'- cUCGGCGGCUC-CGUCgagugCCUC-CUGGa -3'
miRNA:   3'- -AGCUGUUGAGcGCAGa----GGAGuGGCUg -5'
16393 3' -54.5 NC_004084.1 + 30615 0.67 0.741517
Target:  5'- gUCGACGaacagcgucauucgcGCUCGCG-CagCUCGCgGACc -3'
miRNA:   3'- -AGCUGU---------------UGAGCGCaGagGAGUGgCUG- -5'
16393 3' -54.5 NC_004084.1 + 4390 0.67 0.737346
Target:  5'- cUCGACGACgccCGCGa----UCACCGGCg -3'
miRNA:   3'- -AGCUGUUGa--GCGCagaggAGUGGCUG- -5'
16393 3' -54.5 NC_004084.1 + 45486 0.67 0.726846
Target:  5'- uUCGGCGucgaUCaGCGUCUaCCUgGCCGGg -3'
miRNA:   3'- -AGCUGUug--AG-CGCAGA-GGAgUGGCUg -5'
16393 3' -54.5 NC_004084.1 + 12930 0.67 0.726846
Target:  5'- gCGACGAUgaCGaCGUCUUCgUgACCGACg -3'
miRNA:   3'- aGCUGUUGa-GC-GCAGAGG-AgUGGCUG- -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.