miRNA display CGI


Results 1 - 18 of 18 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
27041 3' -53.6 NC_005832.1 + 31251 0.66 0.933556
Target:  5'- cUGGGgacaGACAGGGUuuaCUCggaggUGGGGUg -3'
miRNA:   3'- -ACUCauagCUGUCCCG---GAGa----ACCUCG- -5'
27041 3' -53.6 NC_005832.1 + 91929 0.66 0.928195
Target:  5'- cGAG----GACAGGGaCCUCUgcGGGGUg -3'
miRNA:   3'- aCUCauagCUGUCCC-GGAGAa-CCUCG- -5'
27041 3' -53.6 NC_005832.1 + 24411 0.66 0.927645
Target:  5'- cGAGgagGUUaagguACAGGGUCccgccugccaugaUCUUGGAGCu -3'
miRNA:   3'- aCUCa--UAGc----UGUCCCGG-------------AGAACCUCG- -5'
27041 3' -53.6 NC_005832.1 + 14229 0.67 0.890598
Target:  5'- aGAGUcUCGACGGGuGCCac-UGGcGCu -3'
miRNA:   3'- aCUCAuAGCUGUCC-CGGagaACCuCG- -5'
27041 3' -53.6 NC_005832.1 + 81456 0.67 0.889894
Target:  5'- aGAGaGUCGggcguaauaauauACAGGGCCUCcgagGGAaaGCc -3'
miRNA:   3'- aCUCaUAGC-------------UGUCCCGGAGaa--CCU--CG- -5'
27041 3' -53.6 NC_005832.1 + 67780 0.67 0.868421
Target:  5'- aGAGgcUCacguCAGGGCCga--GGAGCg -3'
miRNA:   3'- aCUCauAGcu--GUCCCGGagaaCCUCG- -5'
27041 3' -53.6 NC_005832.1 + 104772 0.68 0.852471
Target:  5'- aGAGgcgGagGACGGaGGCCUCUUGcucAGCc -3'
miRNA:   3'- aCUCa--UagCUGUC-CCGGAGAACc--UCG- -5'
27041 3' -53.6 NC_005832.1 + 104889 0.68 0.85165
Target:  5'- gGAGUggaacaccccuccGUCGGaaaAGGGUCUUaucgUGGGGCa -3'
miRNA:   3'- aCUCA-------------UAGCUg--UCCCGGAGa---ACCUCG- -5'
27041 3' -53.6 NC_005832.1 + 69053 0.68 0.826936
Target:  5'- aGAGU----GCGGGGUCUCUacgacgGGAGCc -3'
miRNA:   3'- aCUCAuagcUGUCCCGGAGAa-----CCUCG- -5'
27041 3' -53.6 NC_005832.1 + 13707 0.71 0.693291
Target:  5'- aGGGUAUCGucaacccagacacggGCAGGGCg-CU-GGAGCu -3'
miRNA:   3'- aCUCAUAGC---------------UGUCCCGgaGAaCCUCG- -5'
27041 3' -53.6 NC_005832.1 + 54658 0.71 0.688022
Target:  5'- gGAGcauccUGUCGGcCAGGGCggcguccCUCUUGGGGUu -3'
miRNA:   3'- aCUC-----AUAGCU-GUCCCG-------GAGAACCUCG- -5'
27041 3' -53.6 NC_005832.1 + 98219 0.72 0.646588
Target:  5'- aUGAGcucCaGCAcGGGCCUCUUGGAGa -3'
miRNA:   3'- -ACUCauaGcUGU-CCCGGAGAACCUCg -5'
27041 3' -53.6 NC_005832.1 + 39447 0.72 0.603894
Target:  5'- gUGGGag-CGGCuGGGCCUCa-GGGGCa -3'
miRNA:   3'- -ACUCauaGCUGuCCCGGAGaaCCUCG- -5'
27041 3' -53.6 NC_005832.1 + 5522 0.73 0.58265
Target:  5'- aUGAGgGagGGCAGGGUCUCUucggUGGAGa -3'
miRNA:   3'- -ACUCaUagCUGUCCCGGAGA----ACCUCg -5'
27041 3' -53.6 NC_005832.1 + 2280 0.74 0.540684
Target:  5'- --cGUGUccacCGACAGGGCCUCgccgaauaugGGGGCc -3'
miRNA:   3'- acuCAUA----GCUGUCCCGGAGaa--------CCUCG- -5'
27041 3' -53.6 NC_005832.1 + 101807 0.75 0.459342
Target:  5'- aGAGUcugcGUUGACGGGGCCaaaggccaucUCUacgaguuUGGAGCa -3'
miRNA:   3'- aCUCA----UAGCUGUCCCGG----------AGA-------ACCUCG- -5'
27041 3' -53.6 NC_005832.1 + 97211 0.84 0.145783
Target:  5'- cUGAG-GUCGACAGGGCCUCcUGG-GCc -3'
miRNA:   3'- -ACUCaUAGCUGUCCCGGAGaACCuCG- -5'
27041 3' -53.6 NC_005832.1 + 15959 1.13 0.001748
Target:  5'- cUGAGUAUCGACAGGGCCUCUUGGAGCg -3'
miRNA:   3'- -ACUCAUAGCUGUCCCGGAGAACCUCG- -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.