miRNA display CGI


Results 1 - 20 of 41 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
25657 3' -59.9 NC_005337.1 + 21071 0.75 0.240548
Target:  5'- cGCCGUaGUCGuGGUCCCGGAcGUCGUCg -3'
miRNA:   3'- -UGGCAgCGGUuCCGGGGUCU-CAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 59875 0.66 0.720457
Target:  5'- gGCgGU-GCCAGaGCCCCGGAGauguaCGUCu -3'
miRNA:   3'- -UGgCAgCGGUUcCGGGGUCUCa----GCAG- -5'
25657 3' -59.9 NC_005337.1 + 68172 0.66 0.714591
Target:  5'- uUCGUgGCCGAguacgcccugagcgcGGCCCCGGGGgCGcCg -3'
miRNA:   3'- uGGCAgCGGUU---------------CCGGGGUCUCaGCaG- -5'
25657 3' -59.9 NC_005337.1 + 14257 0.66 0.68991
Target:  5'- uACCGUCGCaugcAGGCCCUcccuuacgauggcGGAGUgGa- -3'
miRNA:   3'- -UGGCAGCGgu--UCCGGGG-------------UCUCAgCag -5'
25657 3' -59.9 NC_005337.1 + 20579 0.67 0.67095
Target:  5'- uCCGUCuCCAuGGgCUCAGGGUCGg- -3'
miRNA:   3'- uGGCAGcGGUuCCgGGGUCUCAGCag -5'
25657 3' -59.9 NC_005337.1 + 115566 0.67 0.669949
Target:  5'- cGCCGcagcuccUCGCCGGGGCCCgAGcuGcUGUCu -3'
miRNA:   3'- -UGGC-------AGCGGUUCCGGGgUCu-CaGCAG- -5'
25657 3' -59.9 NC_005337.1 + 101208 0.67 0.640811
Target:  5'- cACCGccugcuUCGCgGAGGUCgCGGAGgCGUCc -3'
miRNA:   3'- -UGGC------AGCGgUUCCGGgGUCUCaGCAG- -5'
25657 3' -59.9 NC_005337.1 + 80509 0.68 0.600566
Target:  5'- gGCCGggggcgggcaCGCCGAGGCCCggggcgCGGAGaUGUCc -3'
miRNA:   3'- -UGGCa---------GCGGUUCCGGG------GUCUCaGCAG- -5'
25657 3' -59.9 NC_005337.1 + 33827 0.69 0.549826
Target:  5'- uCCGUCGCgAAGGgCCguGuuuaugaAGUCGUCc -3'
miRNA:   3'- uGGCAGCGgUUCCgGGguC-------UCAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 69490 0.69 0.540997
Target:  5'- cGCCG-CGCgGAGGaCCCCcGGuUCGUCg -3'
miRNA:   3'- -UGGCaGCGgUUCC-GGGGuCUcAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 109100 0.72 0.35482
Target:  5'- gGCCGagGCCAGGGCCacaCAGAGcgCGg- -3'
miRNA:   3'- -UGGCagCGGUUCCGGg--GUCUCa-GCag -5'
25657 3' -59.9 NC_005337.1 + 96751 0.7 0.444213
Target:  5'- uCCGggacaacggggaguUCGCCGAGGUguuCCCGGGGUCGg- -3'
miRNA:   3'- uGGC--------------AGCGGUUCCG---GGGUCUCAGCag -5'
25657 3' -59.9 NC_005337.1 + 93606 0.7 0.446898
Target:  5'- cGCCGUCGCCGcgccuagagGGcGCCCCAcuG-CGUCg -3'
miRNA:   3'- -UGGCAGCGGU---------UC-CGGGGUcuCaGCAG- -5'
25657 3' -59.9 NC_005337.1 + 75201 0.7 0.492919
Target:  5'- gGCCGcgagaccagCGCCAGccaCCCGGAGUCGUCc -3'
miRNA:   3'- -UGGCa--------GCGGUUccgGGGUCUCAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 44425 0.69 0.502387
Target:  5'- uGCCGgagCGCCGGGaGCCgccgCCGGAGgaCGUCg -3'
miRNA:   3'- -UGGCa--GCGGUUC-CGG----GGUCUCa-GCAG- -5'
25657 3' -59.9 NC_005337.1 + 62407 0.69 0.511932
Target:  5'- cACCGcCGCCuc-GCCCguGGcGUCGUCg -3'
miRNA:   3'- -UGGCaGCGGuucCGGGguCU-CAGCAG- -5'
25657 3' -59.9 NC_005337.1 + 25037 0.69 0.531243
Target:  5'- cGCCGUCGCCAcGGGCCCuccucgCAGA--CGUa -3'
miRNA:   3'- -UGGCAGCGGU-UCCGGG------GUCUcaGCAg -5'
25657 3' -59.9 NC_005337.1 + 39192 0.66 0.730173
Target:  5'- gGCCGUCGCCGcGGGCuacgcggaCCCGGAcccgggCGUg -3'
miRNA:   3'- -UGGCAGCGGU-UCCG--------GGGUCUca----GCAg -5'
25657 3' -59.9 NC_005337.1 + 131195 0.78 0.154734
Target:  5'- gGCCGUCGCCGAGGUgCgCGGAGUCc-- -3'
miRNA:   3'- -UGGCAGCGGUUCCGgG-GUCUCAGcag -5'
25657 3' -59.9 NC_005337.1 + 75089 0.75 0.254607
Target:  5'- aGCCGUCGCCGGuGCCCCgacgcacggccugggGGAGgaaCGUCg -3'
miRNA:   3'- -UGGCAGCGGUUcCGGGG---------------UCUCa--GCAG- -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.