miRNA display CGI


Results 1 - 20 of 46 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
12158 5' -56.4 NC_003309.1 + 639 0.69 0.440299
Target:  5'- cGCGCGAAcuuGAGCcccUGCUCua--CGCGCGg -3'
miRNA:   3'- -CGCGCUU---UUCG---ACGAGcgugGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 1990 0.72 0.310136
Target:  5'- gGUGCGAcAGGUUcgUUGCGCCGUGCGg -3'
miRNA:   3'- -CGCGCUuUUCGAcgAGCGUGGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 3322 0.67 0.585459
Target:  5'- cGCGCGAugucGAGC-GCggaaaggCGCAgCGCGuCGa -3'
miRNA:   3'- -CGCGCUu---UUCGaCGa------GCGUgGCGC-GC- -5'
12158 5' -56.4 NC_003309.1 + 5181 0.74 0.237196
Target:  5'- cGCGCucgaucgccaguuucGAGgcGAGCUGCgCGuCGCCGCGCGc -3'
miRNA:   3'- -CGCG---------------CUU--UUCGACGaGC-GUGGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 6140 0.67 0.563805
Target:  5'- cGCGCGAuu-GCaGCuUCGCuuaCGCGCc -3'
miRNA:   3'- -CGCGCUuuuCGaCG-AGCGug-GCGCGc -5'
12158 5' -56.4 NC_003309.1 + 7133 0.66 0.629163
Target:  5'- -aGCGGAugcGCaUGCUCGCgACCGuUGCa -3'
miRNA:   3'- cgCGCUUuu-CG-ACGAGCG-UGGC-GCGc -5'
12158 5' -56.4 NC_003309.1 + 8810 0.68 0.531749
Target:  5'- uGCGCGuc--GUcGCUCGCA-CGCGUGa -3'
miRNA:   3'- -CGCGCuuuuCGaCGAGCGUgGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 9522 0.66 0.640118
Target:  5'- cCGCGucGAGC-GCgCGCACCGUGa- -3'
miRNA:   3'- cGCGCuuUUCGaCGaGCGUGGCGCgc -5'
12158 5' -56.4 NC_003309.1 + 9716 0.66 0.661998
Target:  5'- cGCGuCGAGcGGUUGC-CGUGugUCGCGCGc -3'
miRNA:   3'- -CGC-GCUUuUCGACGaGCGU--GGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 10490 0.69 0.479922
Target:  5'- uCGCGA--GGCUuucgCGCAUCGCGCGc -3'
miRNA:   3'- cGCGCUuuUCGAcga-GCGUGGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 10586 0.68 0.500377
Target:  5'- uCGCGAcauGC-GCUUGCGCCGcCGCc -3'
miRNA:   3'- cGCGCUuuuCGaCGAGCGUGGC-GCGc -5'
12158 5' -56.4 NC_003309.1 + 10719 0.71 0.35847
Target:  5'- aGCGCGAgcGAAGCcucgGCgCGCucgagcuccuGCUGCGCGg -3'
miRNA:   3'- -CGCGCU--UUUCGa---CGaGCG----------UGGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 10879 0.72 0.310136
Target:  5'- cGCGCGuuccGCUcGCUCGCGCgccUGCGUGg -3'
miRNA:   3'- -CGCGCuuuuCGA-CGAGCGUG---GCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 10950 0.7 0.430686
Target:  5'- cGCGCGAGcgccGuCUGCgcCGuCGCCGCGCu -3'
miRNA:   3'- -CGCGCUUuu--C-GACGa-GC-GUGGCGCGc -5'
12158 5' -56.4 NC_003309.1 + 11076 0.69 0.459884
Target:  5'- uCGCGGAAcAGCaaccaGUUCGCgGCCGCGCc -3'
miRNA:   3'- cGCGCUUU-UCGa----CGAGCG-UGGCGCGc -5'
12158 5' -56.4 NC_003309.1 + 11234 0.7 0.430686
Target:  5'- aCGCGGAcuGC-GCgUCGUcuGCCGCGCGc -3'
miRNA:   3'- cGCGCUUuuCGaCG-AGCG--UGGCGCGC- -5'
12158 5' -56.4 NC_003309.1 + 11508 0.67 0.596349
Target:  5'- cUGCGAcgcGAGGCUcGCcgugucgaUCGCGCCG-GCGg -3'
miRNA:   3'- cGCGCU---UUUCGA-CG--------AGCGUGGCgCGC- -5'
12158 5' -56.4 NC_003309.1 + 11984 0.75 0.217045
Target:  5'- cGCGCGGc-AGCcGCggcgCGCGCCGCGuCGg -3'
miRNA:   3'- -CGCGCUuuUCGaCGa---GCGUGGCGC-GC- -5'
12158 5' -56.4 NC_003309.1 + 12651 0.8 0.090028
Target:  5'- aUGCGAGccGCUGCUCGagauaGCCGCGCu -3'
miRNA:   3'- cGCGCUUuuCGACGAGCg----UGGCGCGc -5'
12158 5' -56.4 NC_003309.1 + 16126 0.73 0.260216
Target:  5'- uCGCGAugccGCUgcGCUCGCACauCGCGCGa -3'
miRNA:   3'- cGCGCUuuu-CGA--CGAGCGUG--GCGCGC- -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.