miRNA display CGI


Results 1 - 20 of 37 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
13952 3' -49.4 NC_003521.1 + 116024 0.66 0.999525
Target:  5'- cAGGCCgcGGUGgaagagcaucacGCAgaUGAGCCGCAGGa-- -3'
miRNA:   3'- -UUUGG--UCAU------------UGU--ACUCGGUGUCCauc -5'
13952 3' -49.4 NC_003521.1 + 52223 0.66 0.999525
Target:  5'- gGGGCCGGUAggGCGgcGGGCUACAGuUGGg -3'
miRNA:   3'- -UUUGGUCAU--UGUa-CUCGGUGUCcAUC- -5'
13952 3' -49.4 NC_003521.1 + 11967 0.66 0.999525
Target:  5'- gAGGCCGGacgaggaAUGAGCCGguGGUGc -3'
miRNA:   3'- -UUUGGUCauug---UACUCGGUguCCAUc -5'
13952 3' -49.4 NC_003521.1 + 81987 0.66 0.999525
Target:  5'- aGAGCCAGguGCu---GCCGCGGGUGu -3'
miRNA:   3'- -UUUGGUCauUGuacuCGGUGUCCAUc -5'
13952 3' -49.4 NC_003521.1 + 44632 0.66 0.99941
Target:  5'- cGGCCucgGGCGUGGGCCGCAGc--- -3'
miRNA:   3'- uUUGGucaUUGUACUCGGUGUCcauc -5'
13952 3' -49.4 NC_003521.1 + 130635 0.66 0.999271
Target:  5'- -cGCCGGUGGCGcUGAGCgCGCAcGGc-- -3'
miRNA:   3'- uuUGGUCAUUGU-ACUCG-GUGU-CCauc -5'
13952 3' -49.4 NC_003521.1 + 28800 0.66 0.999105
Target:  5'- uGGCCAGggcgaaggccGGCAUGGGCaCGCAGGc-- -3'
miRNA:   3'- uUUGGUCa---------UUGUACUCG-GUGUCCauc -5'
13952 3' -49.4 NC_003521.1 + 76182 0.66 0.999105
Target:  5'- cGGGCCu---GCGUGAggcGCCACAGGaUGGg -3'
miRNA:   3'- -UUUGGucauUGUACU---CGGUGUCC-AUC- -5'
13952 3' -49.4 NC_003521.1 + 164857 0.67 0.998886
Target:  5'- cGGCCGGUGGCGUGGcgguuacugucucGCCAgCAccGGUGGc -3'
miRNA:   3'- uUUGGUCAUUGUACU-------------CGGU-GU--CCAUC- -5'
13952 3' -49.4 NC_003521.1 + 77859 0.67 0.998674
Target:  5'- --cCCGGUGACGUGgguucGGCCACGGcGg-- -3'
miRNA:   3'- uuuGGUCAUUGUAC-----UCGGUGUC-Cauc -5'
13952 3' -49.4 NC_003521.1 + 13301 0.67 0.998674
Target:  5'- uAGCCAGauccAACAUGAGCCugGGcugccugccGUGGc -3'
miRNA:   3'- uUUGGUCa---UUGUACUCGGugUC---------CAUC- -5'
13952 3' -49.4 NC_003521.1 + 138748 0.67 0.997704
Target:  5'- cAGCUGGUAGac-GGGCgGCAGGUGGc -3'
miRNA:   3'- uUUGGUCAUUguaCUCGgUGUCCAUC- -5'
13952 3' -49.4 NC_003521.1 + 86184 0.67 0.997704
Target:  5'- -cACCAGcGACucgcGGGCCAC-GGUGGa -3'
miRNA:   3'- uuUGGUCaUUGua--CUCGGUGuCCAUC- -5'
13952 3' -49.4 NC_003521.1 + 29487 0.68 0.997271
Target:  5'- --cCCAGUAGaggaucucCAUGAGCUcCAGGUAc -3'
miRNA:   3'- uuuGGUCAUU--------GUACUCGGuGUCCAUc -5'
13952 3' -49.4 NC_003521.1 + 212030 0.68 0.997271
Target:  5'- -uGCCaAGUGGCAUGAGagggCGCGGGgcGc -3'
miRNA:   3'- uuUGG-UCAUUGUACUCg---GUGUCCauC- -5'
13952 3' -49.4 NC_003521.1 + 180912 0.68 0.996772
Target:  5'- --cCCGGUAGC--GAGCCGCGGcGUGa -3'
miRNA:   3'- uuuGGUCAUUGuaCUCGGUGUC-CAUc -5'
13952 3' -49.4 NC_003521.1 + 36850 0.68 0.996201
Target:  5'- -uGCCGGguagagcaccUGACGUGGGCCggcaaGCGGGUGa -3'
miRNA:   3'- uuUGGUC----------AUUGUACUCGG-----UGUCCAUc -5'
13952 3' -49.4 NC_003521.1 + 44346 0.68 0.996201
Target:  5'- uGGGCCAccGGCuUGAcCCGCAGGUAGg -3'
miRNA:   3'- -UUUGGUcaUUGuACUcGGUGUCCAUC- -5'
13952 3' -49.4 NC_003521.1 + 137055 0.68 0.995549
Target:  5'- cGGGCagcGUGAcCGUGAGCCcgcugucgcGCAGGUAGg -3'
miRNA:   3'- -UUUGgu-CAUU-GUACUCGG---------UGUCCAUC- -5'
13952 3' -49.4 NC_003521.1 + 73151 0.68 0.994809
Target:  5'- cAGCCcguGUAGCGUGAGCCuGC-GGUGa -3'
miRNA:   3'- uUUGGu--CAUUGUACUCGG-UGuCCAUc -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.