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 + 758 0.65 0.491739
Target:  5'- cGGAGUu-CGUCgccGCaguugcuugcggccUGCUGCUGUGGCc -3'
miRNA:   3'- -CCUCAcuGCAGa--CG--------------ACGGCGGCGCCG- -5'
11609 3' -59.7 NC_003085.1 + 809 0.75 0.125266
Target:  5'- cGGuG-GACGUCcGCgUGCCGCCGCaGGUc -3'
miRNA:   3'- -CCuCaCUGCAGaCG-ACGGCGGCG-CCG- -5'
11609 3' -59.7 NC_003085.1 + 1531 0.7 0.280964
Target:  5'- aGGcGUGacuccaGCGUCUGCUGUCgcgagGCCGUGcGCg -3'
miRNA:   3'- -CCuCAC------UGCAGACGACGG-----CGGCGC-CG- -5'
11609 3' -59.7 NC_003085.1 + 2075 0.67 0.417787
Target:  5'- cGGAcgGUGACG-CgacgaGCgcaGCCGCCGCaccucGGCg -3'
miRNA:   3'- -CCU--CACUGCaGa----CGa--CGGCGGCG-----CCG- -5'
11609 3' -59.7 NC_003085.1 + 5098 0.7 0.26743
Target:  5'- cGGAGUuggaGGCGUUUcucGC-GUCGCCGCGGg -3'
miRNA:   3'- -CCUCA----CUGCAGA---CGaCGGCGGCGCCg -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 + 7551 0.7 0.27413
Target:  5'- gGGuGUGACGUCgacCU--UGCCGCGGCc -3'
miRNA:   3'- -CCuCACUGCAGac-GAcgGCGGCGCCG- -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 + 8037 0.68 0.373546
Target:  5'- cGGAGa-GCGUauggCUGUUGCCGCCcgaGGCu -3'
miRNA:   3'- -CCUCacUGCA----GACGACGGCGGcg-CCG- -5'
11609 3' -59.7 NC_003085.1 + 9141 0.66 0.454428
Target:  5'- gGGAGcggcaccUGGCGga-GCUcGCCGCCGC-GCa -3'
miRNA:   3'- -CCUC-------ACUGCagaCGA-CGGCGGCGcCG- -5'
11609 3' -59.7 NC_003085.1 + 9562 0.71 0.229985
Target:  5'- aGAGacGGCGUUUGgcCUGCCGCCGCcgagcaccGGCg -3'
miRNA:   3'- cCUCa-CUGCAGAC--GACGGCGGCG--------CCG- -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 + 11450 0.71 0.235904
Target:  5'- aGGAGUGGgG-CUGCa-CCGCCGgGGUc -3'
miRNA:   3'- -CCUCACUgCaGACGacGGCGGCgCCG- -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 + 12774 0.73 0.168331
Target:  5'- uGGGGUGAUGcCc-CUGCCGCCGUugucgGGCa -3'
miRNA:   3'- -CCUCACUGCaGacGACGGCGGCG-----CCG- -5'
11609 3' -59.7 NC_003085.1 + 13444 0.68 0.373546
Target:  5'- uGGGUGACGUgCU-CUGguaCGUCGCGGUc -3'
miRNA:   3'- cCUCACUGCA-GAcGACg--GCGGCGCCG- -5'
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 + 17132 0.69 0.309651
Target:  5'- aGGAGgcacuggacGGCGUCUGCUacugGCgCGCUGaGGCg -3'
miRNA:   3'- -CCUCa--------CUGCAGACGA----CG-GCGGCgCCG- -5'
11609 3' -59.7 NC_003085.1 + 17590 0.71 0.248124
Target:  5'- cGGGGUGAcaCGcCUGCUGCucCGCCGUGc- -3'
miRNA:   3'- -CCUCACU--GCaGACGACG--GCGGCGCcg -5'
11609 3' -59.7 NC_003085.1 + 19312 0.82 0.035489
Target:  5'- gGGGGUGACGUcCUGCguggGCUGCUGgGGCc -3'
miRNA:   3'- -CCUCACUGCA-GACGa---CGGCGGCgCCG- -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.