miRNA display CGI


Results 1 - 20 of 45 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
11609 3' -59.7 NC_003085.1 + 15783 0.66 0.478809
Target:  5'- gGGAGUcuGAcCGgcaugCgaauacuccuugcauUGCUgGCCGCCGUGGCc -3'
miRNA:   3'- -CCUCA--CU-GCa----G---------------ACGA-CGGCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 29798 0.69 0.32481
Target:  5'- aGGAGgucGcCGUagaUGCUGCCcuuGUCGUGGCu -3'
miRNA:   3'- -CCUCa--CuGCAg--ACGACGG---CGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 25289 0.67 0.390858
Target:  5'- uGGAGaUGACGUcCUGUgggGCCGUCGguaGCa -3'
miRNA:   3'- -CCUC-ACUGCA-GACGa--CGGCGGCgc-CG- -5'
11609 3' -59.7 NC_003085.1 + 7437 0.67 0.408685
Target:  5'- uGGAGaGAaggcgcccuCGUCcgUGCcgacGCCGCCGgGGCa -3'
miRNA:   3'- -CCUCaCU---------GCAG--ACGa---CGGCGGCgCCG- -5'
11609 3' -59.7 NC_003085.1 + 9775 0.67 0.415957
Target:  5'- cGGAGaGACGagccuccagcgcCUGCUGCUGCucaCGCGcGCg -3'
miRNA:   3'- -CCUCaCUGCa-----------GACGACGGCG---GCGC-CG- -5'
11609 3' -59.7 NC_003085.1 + 20469 0.67 0.417787
Target:  5'- -aAG-GACGUCUGCaUGCCccaacuGCCGUugGGCc -3'
miRNA:   3'- ccUCaCUGCAGACG-ACGG------CGGCG--CCG- -5'
11609 3' -59.7 NC_003085.1 + 19312 0.82 0.035489
Target:  5'- gGGGGUGACGUcCUGCguggGCUGCUGgGGCc -3'
miRNA:   3'- -CCUCACUGCA-GACGa---CGGCGGCgCCG- -5'
11609 3' -59.7 NC_003085.1 + 7897 0.73 0.168331
Target:  5'- ---cUGAC-UCUGgcucccgcgaCUGCCGCCGCGGCg -3'
miRNA:   3'- ccucACUGcAGAC----------GACGGCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 37450 0.71 0.235904
Target:  5'- cGGcaGGUGcgccaGCGUCaggccGCUGCUGCCGCaGGCc -3'
miRNA:   3'- -CC--UCAC-----UGCAGa----CGACGGCGGCG-CCG- -5'
11609 3' -59.7 NC_003085.1 + 24161 0.68 0.356762
Target:  5'- ----cGGCGUCguccaccugGCcgGCCGUCGCGGUg -3'
miRNA:   3'- ccucaCUGCAGa--------CGa-CGGCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 47080 0.67 0.408685
Target:  5'- gGGAGUaccuGCGagaGCUcGCgCGCCGCGGCc -3'
miRNA:   3'- -CCUCAc---UGCagaCGA-CG-GCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 48352 0.66 0.465074
Target:  5'- uGGAcaucggGACGg--GCUcGCUGCCGCGGa -3'
miRNA:   3'- -CCUca----CUGCagaCGA-CGGCGGCGCCg -5'
11609 3' -59.7 NC_003085.1 + 26677 0.73 0.172845
Target:  5'- gGGAGcGGcCGUUgccGCUGCCGucgccaCCGCGGCg -3'
miRNA:   3'- -CCUCaCU-GCAGa--CGACGGC------GGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 43510 0.66 0.445816
Target:  5'- aGGGGUGGacug-GCauCUGCCGCGGCg -3'
miRNA:   3'- -CCUCACUgcagaCGacGGCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 8037 0.68 0.373546
Target:  5'- cGGAGa-GCGUauggCUGUUGCCGCCcgaGGCu -3'
miRNA:   3'- -CCUCacUGCA----GACGACGGCGGcg-CCG- -5'
11609 3' -59.7 NC_003085.1 + 12207 0.73 0.168331
Target:  5'- aGGuacGUGugGUCUGCgacGCCuGCCuugagcGCGGCg -3'
miRNA:   3'- -CCu--CACugCAGACGa--CGG-CGG------CGCCG- -5'
11609 3' -59.7 NC_003085.1 + 43890 0.67 0.427011
Target:  5'- aGGGcGUaGACGUg-GCgcaCCGUCGCGGCg -3'
miRNA:   3'- -CCU-CA-CUGCAgaCGac-GGCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 30396 0.7 0.287932
Target:  5'- cGGGcccGGCGcCUGCU-CCGCCGCGcGCc -3'
miRNA:   3'- cCUCa--CUGCaGACGAcGGCGGCGC-CG- -5'
11609 3' -59.7 NC_003085.1 + 38156 0.69 0.332595
Target:  5'- uGGuGGUGGCG-CUcc--CCGCCGCGGCg -3'
miRNA:   3'- -CC-UCACUGCaGAcgacGGCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 40351 0.69 0.317162
Target:  5'- uGGGcgGugGgcaagCcGCUGCUGcCCGCGGCg -3'
miRNA:   3'- cCUCa-CugCa----GaCGACGGC-GGCGCCG- -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.