miRNA display CGI


Results 1 - 20 of 26 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
5131 3' -57.9 NC_001798.1 + 4115 0.67 0.808701
Target:  5'- -cCCUGGGCG-GGcucGGCCGGGG-CGc -3'
miRNA:   3'- gaGGACCUGCaCCu--CCGGUUCCaGCu -5'
5131 3' -57.9 NC_001798.1 + 6360 0.7 0.595927
Target:  5'- -gCCggggGGACGggccgGGGGGCCGGGGggcCGGg -3'
miRNA:   3'- gaGGa---CCUGCa----CCUCCGGUUCCa--GCU- -5'
5131 3' -57.9 NC_001798.1 + 7797 0.66 0.83393
Target:  5'- --gCUGG-CG-GGA-GCCAGGGUCGGa -3'
miRNA:   3'- gagGACCuGCaCCUcCGGUUCCAGCU- -5'
5131 3' -57.9 NC_001798.1 + 8298 0.74 0.391326
Target:  5'- cCUCCUGGGgGgggGGGGGCgaGAGGUCa- -3'
miRNA:   3'- -GAGGACCUgCa--CCUCCGg-UUCCAGcu -5'
5131 3' -57.9 NC_001798.1 + 11641 0.66 0.83393
Target:  5'- ----cGGGCGUcccuguguccccGGGGGCgGGGGUCGGg -3'
miRNA:   3'- gaggaCCUGCA------------CCUCCGgUUCCAGCU- -5'
5131 3' -57.9 NC_001798.1 + 30152 0.67 0.791096
Target:  5'- ----cGGGCG-GGGGGCCGGGGU-GAg -3'
miRNA:   3'- gaggaCCUGCaCCUCCGGUUCCAgCU- -5'
5131 3' -57.9 NC_001798.1 + 30750 0.74 0.399647
Target:  5'- -cCCcGGacccGCGUGGAGGCCGAGG-CGGc -3'
miRNA:   3'- gaGGaCC----UGCACCUCCGGUUCCaGCU- -5'
5131 3' -57.9 NC_001798.1 + 30919 0.66 0.83393
Target:  5'- -aCCUGGccgACGgugagGGcGGCgGGGGUCGGg -3'
miRNA:   3'- gaGGACC---UGCa----CCuCCGgUUCCAGCU- -5'
5131 3' -57.9 NC_001798.1 + 31974 0.69 0.706013
Target:  5'- -cCCaGGGgGUGGGGGCCAagAGGgCGGc -3'
miRNA:   3'- gaGGaCCUgCACCUCCGGU--UCCaGCU- -5'
5131 3' -57.9 NC_001798.1 + 58566 0.66 0.849874
Target:  5'- cCUCCgGGGCGUaucGGGGCgGGGGagacUCGAc -3'
miRNA:   3'- -GAGGaCCUGCAc--CUCCGgUUCC----AGCU- -5'
5131 3' -57.9 NC_001798.1 + 65229 0.66 0.825688
Target:  5'- --aCUGGAuCGcuUGGAGGCC-GGGUgGAc -3'
miRNA:   3'- gagGACCU-GC--ACCUCCGGuUCCAgCU- -5'
5131 3' -57.9 NC_001798.1 + 74860 0.77 0.280648
Target:  5'- gUCCUGGAgGUGGGGGCagugccgguGGGUCGc -3'
miRNA:   3'- gAGGACCUgCACCUCCGgu-------UCCAGCu -5'
5131 3' -57.9 NC_001798.1 + 78916 0.71 0.546311
Target:  5'- -cCCUGGA---GGAGGCCGAGG-CGGa -3'
miRNA:   3'- gaGGACCUgcaCCUCCGGUUCCaGCU- -5'
5131 3' -57.9 NC_001798.1 + 85282 0.69 0.706013
Target:  5'- gCUUCggGGGgGcGGGGGCCGGGGUCc- -3'
miRNA:   3'- -GAGGa-CCUgCaCCUCCGGUUCCAGcu -5'
5131 3' -57.9 NC_001798.1 + 85808 0.66 0.849874
Target:  5'- cCUCCggGGGCGaugacggggGGGGGCgGGGG-CGGg -3'
miRNA:   3'- -GAGGa-CCUGCa--------CCUCCGgUUCCaGCU- -5'
5131 3' -57.9 NC_001798.1 + 90072 0.68 0.715824
Target:  5'- aCUCCaGGACGacGGGGGCCGgcaggccccuggAGG-CGAg -3'
miRNA:   3'- -GAGGaCCUGCa-CCUCCGGU------------UCCaGCU- -5'
5131 3' -57.9 NC_001798.1 + 95566 0.69 0.686217
Target:  5'- -cCCUGGAgGUggcccacgaggcGGAGGCCcuGGUCa- -3'
miRNA:   3'- gaGGACCUgCA------------CCUCCGGuuCCAGcu -5'
5131 3' -57.9 NC_001798.1 + 104165 0.66 0.83393
Target:  5'- -gCCUGGGCGUccAGGCaCAGGG-CGGc -3'
miRNA:   3'- gaGGACCUGCAccUCCG-GUUCCaGCU- -5'
5131 3' -57.9 NC_001798.1 + 111179 0.68 0.725567
Target:  5'- gUCCuUGGGCG-GGAGG---AGGUCGAa -3'
miRNA:   3'- gAGG-ACCUGCaCCUCCgguUCCAGCU- -5'
5131 3' -57.9 NC_001798.1 + 114933 0.69 0.696141
Target:  5'- uUCCUGaAgGUGGAGGacaCCGAGGcCGAc -3'
miRNA:   3'- gAGGACcUgCACCUCC---GGUUCCaGCU- -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.