miRNA display CGI


Results 1 - 20 of 33 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
16429 3' -53.5 NC_004084.1 + 5683 0.66 0.862922
Target:  5'- -----cGGAGGU-CGUCGAGgUCCGCu -3'
miRNA:   3'- agcuuuCCUCUAgGCAGCUCaGGGCG- -5'
16429 3' -53.5 NC_004084.1 + 16844 0.66 0.862922
Target:  5'- -gGgcGGGAGAUcCCGUCGAugaUCGCa -3'
miRNA:   3'- agCuuUCCUCUA-GGCAGCUcagGGCG- -5'
16429 3' -53.5 NC_004084.1 + 55814 0.66 0.85471
Target:  5'- aCGAGAGGA-AUCgGUCGA--CCCGg -3'
miRNA:   3'- aGCUUUCCUcUAGgCAGCUcaGGGCg -5'
16429 3' -53.5 NC_004084.1 + 18889 0.66 0.85471
Target:  5'- aUCacGAGGAGAUCC-UCGAGgacgUCGCg -3'
miRNA:   3'- -AGcuUUCCUCUAGGcAGCUCag--GGCG- -5'
16429 3' -53.5 NC_004084.1 + 54827 0.66 0.828727
Target:  5'- gUCuGGAGGAcGUUCGUCGcGGUcgCCCGCu -3'
miRNA:   3'- -AGcUUUCCUcUAGGCAGC-UCA--GGGCG- -5'
16429 3' -53.5 NC_004084.1 + 108 0.67 0.823302
Target:  5'- cUCGAugguggauguggacgGAGGAGAccucgUCCG-CaGAGcgCCCGCa -3'
miRNA:   3'- -AGCU---------------UUCCUCU-----AGGCaG-CUCa-GGGCG- -5'
16429 3' -53.5 NC_004084.1 + 50498 0.67 0.819646
Target:  5'- cUGAccGAGGAGAUCgacccguggaaCGUCGAGagcCCCGa -3'
miRNA:   3'- aGCU--UUCCUCUAG-----------GCAGCUCa--GGGCg -5'
16429 3' -53.5 NC_004084.1 + 56926 0.67 0.818727
Target:  5'- cUCGAGggcgacgucuaccAGGAGGU-CGUCGA-UCgCCGCa -3'
miRNA:   3'- -AGCUU-------------UCCUCUAgGCAGCUcAG-GGCG- -5'
16429 3' -53.5 NC_004084.1 + 32205 0.67 0.810371
Target:  5'- aCGAGAGGAGcgCC-UCGAGaugcUCCuCGa -3'
miRNA:   3'- aGCUUUCCUCuaGGcAGCUC----AGG-GCg -5'
16429 3' -53.5 NC_004084.1 + 16657 0.67 0.810371
Target:  5'- gUCGuccGGGAGGUCCucGUCGccggcgucGUCCCGa -3'
miRNA:   3'- -AGCuu-UCCUCUAGG--CAGCu-------CAGGGCg -5'
16429 3' -53.5 NC_004084.1 + 27512 0.67 0.809433
Target:  5'- cUCGAGgaccuccuccgGGGAGAUCgcgccguUGUCGAGaagCUCGCc -3'
miRNA:   3'- -AGCUU-----------UCCUCUAG-------GCAGCUCa--GGGCG- -5'
16429 3' -53.5 NC_004084.1 + 45562 0.67 0.809433
Target:  5'- cUCGAAGcGGAGuacgCCGaCGGGUucgcguucaacaaCCCGCu -3'
miRNA:   3'- -AGCUUU-CCUCua--GGCaGCUCA-------------GGGCG- -5'
16429 3' -53.5 NC_004084.1 + 4312 0.67 0.791277
Target:  5'- gUGAucGcGGGcgUCGUCGAGUCCggaGCg -3'
miRNA:   3'- aGCUuuC-CUCuaGGCAGCUCAGGg--CG- -5'
16429 3' -53.5 NC_004084.1 + 17358 0.67 0.791277
Target:  5'- cUCGAguGAGGAGAacaUCCGUuccgccggUGAGgaUCUCGCc -3'
miRNA:   3'- -AGCU--UUCCUCU---AGGCA--------GCUC--AGGGCG- -5'
16429 3' -53.5 NC_004084.1 + 15409 0.67 0.791277
Target:  5'- cUCGuuGGGGaacuccucGAUCgCGUCGAGUUCCu- -3'
miRNA:   3'- -AGCuuUCCU--------CUAG-GCAGCUCAGGGcg -5'
16429 3' -53.5 NC_004084.1 + 9713 0.68 0.74087
Target:  5'- cUCGAAAGGAcGucgCCGgauUCGAGgcCCCGUc -3'
miRNA:   3'- -AGCUUUCCU-Cua-GGC---AGCUCa-GGGCG- -5'
16429 3' -53.5 NC_004084.1 + 1332 0.68 0.730419
Target:  5'- cUCGAcguAGGAGuacUCCGUCGGGUguuuuuccUCCGg -3'
miRNA:   3'- -AGCUu--UCCUCu--AGGCAGCUCA--------GGGCg -5'
16429 3' -53.5 NC_004084.1 + 24158 0.68 0.719871
Target:  5'- cUCGAAgaGGGAGGUUCacCGAcGcUCCCGCa -3'
miRNA:   3'- -AGCUU--UCCUCUAGGcaGCU-C-AGGGCG- -5'
16429 3' -53.5 NC_004084.1 + 36466 0.68 0.719871
Target:  5'- gUCGuccGGGAGAUC--UCGA-UCCCGCa -3'
miRNA:   3'- -AGCuu-UCCUCUAGgcAGCUcAGGGCG- -5'
16429 3' -53.5 NC_004084.1 + 42372 0.69 0.709237
Target:  5'- cCGAGcGGGAGcaacgcAUCC-UCGAGgaggCCCGCg -3'
miRNA:   3'- aGCUU-UCCUC------UAGGcAGCUCa---GGGCG- -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.