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
16173 3' -53.5 NC_004065.1 + 66473 0.66 0.989217
Target:  5'- uUACGUCggUCGuCAUCGUGAgauUugGACGa -3'
miRNA:   3'- -AUGCAGa-GGC-GUAGCACU---GugCUGUg -5'
16173 3' -53.5 NC_004065.1 + 2304 0.66 0.989217
Target:  5'- -uCGUCuUCUGUGUCGUGAUAUcAUACg -3'
miRNA:   3'- auGCAG-AGGCGUAGCACUGUGcUGUG- -5'
16173 3' -53.5 NC_004065.1 + 169364 0.66 0.989217
Target:  5'- -cCGUCUgucagcucgaCGCGUgCGUGGCGCGGgGCa -3'
miRNA:   3'- auGCAGAg---------GCGUA-GCACUGUGCUgUG- -5'
16173 3' -53.5 NC_004065.1 + 43688 0.66 0.989217
Target:  5'- -cCGUCgUCCGCGccgucgaagaUCGUGAgguacgaaGCGGCGCa -3'
miRNA:   3'- auGCAG-AGGCGU----------AGCACUg-------UGCUGUG- -5'
16173 3' -53.5 NC_004065.1 + 186659 0.66 0.988807
Target:  5'- aUACGUCgucgacucggacgaGUGUCGggGACGCGGCGCg -3'
miRNA:   3'- -AUGCAGagg-----------CGUAGCa-CUGUGCUGUG- -5'
16173 3' -53.5 NC_004065.1 + 18083 0.66 0.987803
Target:  5'- aGCGaCcgCCGCAgccUCGUGGC-CGGCAUc -3'
miRNA:   3'- aUGCaGa-GGCGU---AGCACUGuGCUGUG- -5'
16173 3' -53.5 NC_004065.1 + 54030 0.66 0.987803
Target:  5'- uUAgGUCUUCGCGgag-GGCGCGACGa -3'
miRNA:   3'- -AUgCAGAGGCGUagcaCUGUGCUGUg -5'
16173 3' -53.5 NC_004065.1 + 162751 0.66 0.987803
Target:  5'- cUGCGUCUCCGCcgUGccguUGAacggcCGCGAUAa -3'
miRNA:   3'- -AUGCAGAGGCGuaGC----ACU-----GUGCUGUg -5'
16173 3' -53.5 NC_004065.1 + 147142 0.66 0.987803
Target:  5'- -cCGUCUgCCGCAUCaccGUGGCcaugaGCGGCGu -3'
miRNA:   3'- auGCAGA-GGCGUAG---CACUG-----UGCUGUg -5'
16173 3' -53.5 NC_004065.1 + 81656 0.66 0.98625
Target:  5'- cAUGUCUCUgGUGUCGcUGACGCuGACGg -3'
miRNA:   3'- aUGCAGAGG-CGUAGC-ACUGUG-CUGUg -5'
16173 3' -53.5 NC_004065.1 + 2270 0.66 0.98455
Target:  5'- gUACGUCUCCGUu---UGACACGGu-- -3'
miRNA:   3'- -AUGCAGAGGCGuagcACUGUGCUgug -5'
16173 3' -53.5 NC_004065.1 + 185222 0.66 0.98455
Target:  5'- cGCGgagaaUCCGUAUCGgagGACACGuCGg -3'
miRNA:   3'- aUGCag---AGGCGUAGCa--CUGUGCuGUg -5'
16173 3' -53.5 NC_004065.1 + 190798 0.66 0.982694
Target:  5'- cGCGUCUgCGagacgguaGUgGUGAUcuGCGACGCg -3'
miRNA:   3'- aUGCAGAgGCg-------UAgCACUG--UGCUGUG- -5'
16173 3' -53.5 NC_004065.1 + 159987 0.66 0.982694
Target:  5'- -cCGUCUCCac--CGUGACgaGCGACGCc -3'
miRNA:   3'- auGCAGAGGcguaGCACUG--UGCUGUG- -5'
16173 3' -53.5 NC_004065.1 + 112897 0.67 0.980675
Target:  5'- -cCGUCUCCGUccggAUCagGUGcgacaccaggGCGCGGCACg -3'
miRNA:   3'- auGCAGAGGCG----UAG--CAC----------UGUGCUGUG- -5'
16173 3' -53.5 NC_004065.1 + 101462 0.67 0.980675
Target:  5'- gACGUCgcugCCGCugCG-GGCGCaGACACa -3'
miRNA:   3'- aUGCAGa---GGCGuaGCaCUGUG-CUGUG- -5'
16173 3' -53.5 NC_004065.1 + 59430 0.67 0.980675
Target:  5'- aAUGUCUCCGacgacaaaguCGUCGUGAUcCG-CGCg -3'
miRNA:   3'- aUGCAGAGGC----------GUAGCACUGuGCuGUG- -5'
16173 3' -53.5 NC_004065.1 + 208931 0.67 0.978485
Target:  5'- cACGUCUCUcCGUCGUGGCGgcCGAa-- -3'
miRNA:   3'- aUGCAGAGGcGUAGCACUGU--GCUgug -5'
16173 3' -53.5 NC_004065.1 + 83054 0.67 0.978485
Target:  5'- -uCGUCUUCGCAggCGUc-CAUGACGCg -3'
miRNA:   3'- auGCAGAGGCGUa-GCAcuGUGCUGUG- -5'
16173 3' -53.5 NC_004065.1 + 68386 0.67 0.978485
Target:  5'- gGCGaagaUCgCCGCGuUCGUGGCGCaGCACc -3'
miRNA:   3'- aUGC----AGaGGCGU-AGCACUGUGcUGUG- -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.