miRNA display CGI


Results 1 - 20 of 49 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
18072 3' -56.1 NC_004680.1 + 12265 0.66 0.7215
Target:  5'- aCGAACUGGCCCGCCCaaGGCGcuGGuguUGGu -3'
miRNA:   3'- gGUUUGGUUGGGUGGG--CCGU--CCu--GCU- -5'
18072 3' -56.1 NC_004680.1 + 57841 0.68 0.614497
Target:  5'- aCCucuACC-ACCUAUCCGGU-GGugGAg -3'
miRNA:   3'- -GGuu-UGGuUGGGUGGGCCGuCCugCU- -5'
18072 3' -56.1 NC_004680.1 + 11026 0.67 0.636083
Target:  5'- gCC-AGCCGGCCC-CCCGGCcccGuCGAu -3'
miRNA:   3'- -GGuUUGGUUGGGuGGGCCGuc-CuGCU- -5'
18072 3' -56.1 NC_004680.1 + 25875 0.67 0.646876
Target:  5'- cCCGGAgCGAgCU-CCCGGCAGGAg-- -3'
miRNA:   3'- -GGUUUgGUUgGGuGGGCCGUCCUgcu -5'
18072 3' -56.1 NC_004680.1 + 43984 0.67 0.653346
Target:  5'- cCCGAACCAACCCgucgaucugucgaaACCCugcgguucauugcGGCuuGGGAUGc -3'
miRNA:   3'- -GGUUUGGUUGGG--------------UGGG-------------CCG--UCCUGCu -5'
18072 3' -56.1 NC_004680.1 + 36051 0.67 0.657656
Target:  5'- -aAAACC--CCCGCCUGuCGGGGCGGg -3'
miRNA:   3'- ggUUUGGuuGGGUGGGCcGUCCUGCU- -5'
18072 3' -56.1 NC_004680.1 + 12428 0.67 0.668413
Target:  5'- aCCcAGCCccgcuGCCCACcaCCGGUGGuGGCGGc -3'
miRNA:   3'- -GGuUUGGu----UGGGUG--GGCCGUC-CUGCU- -5'
18072 3' -56.1 NC_004680.1 + 21122 0.67 0.668413
Target:  5'- aCCu--CCAACCC-CCCGGCcgcGGGGu-- -3'
miRNA:   3'- -GGuuuGGUUGGGuGGGCCG---UCCUgcu -5'
18072 3' -56.1 NC_004680.1 + 30850 0.66 0.715216
Target:  5'- gUAGGCCAGCCCgacuaucugacggagGgCCUGGUgaaucguuacuGGGACGAa -3'
miRNA:   3'- gGUUUGGUUGGG---------------U-GGGCCG-----------UCCUGCU- -5'
18072 3' -56.1 NC_004680.1 + 10909 0.69 0.550357
Target:  5'- -aGGACCAGCCCGa-CGGCgAGGACc- -3'
miRNA:   3'- ggUUUGGUUGGGUggGCCG-UCCUGcu -5'
18072 3' -56.1 NC_004680.1 + 38790 0.69 0.539841
Target:  5'- cCCGcGCCGggACCCuCCaaCGGCuGGGACGAa -3'
miRNA:   3'- -GGUuUGGU--UGGGuGG--GCCG-UCCUGCU- -5'
18072 3' -56.1 NC_004680.1 + 31156 0.69 0.529394
Target:  5'- gCUGAcCCGACCCACUCGGCAccgucguagcaGACGGa -3'
miRNA:   3'- -GGUUuGGUUGGGUGGGCCGUc----------CUGCU- -5'
18072 3' -56.1 NC_004680.1 + 28999 0.75 0.230518
Target:  5'- cCCAAACCGcgaucGCCaCACUCGGCGcGGGCGc -3'
miRNA:   3'- -GGUUUGGU-----UGG-GUGGGCCGU-CCUGCu -5'
18072 3' -56.1 NC_004680.1 + 8447 0.74 0.282071
Target:  5'- -gGGGCUGgcACCCACCCGGCAGGcACc- -3'
miRNA:   3'- ggUUUGGU--UGGGUGGGCCGUCC-UGcu -5'
18072 3' -56.1 NC_004680.1 + 15787 0.73 0.339126
Target:  5'- uUCAAGCCGAUCaucaagcagguuCCCGGCAuGGACGGc -3'
miRNA:   3'- -GGUUUGGUUGGgu----------GGGCCGU-CCUGCU- -5'
18072 3' -56.1 NC_004680.1 + 12899 0.72 0.384501
Target:  5'- gCCAGGuCCAGCCCAa---GCAGGGCGAc -3'
miRNA:   3'- -GGUUU-GGUUGGGUgggcCGUCCUGCU- -5'
18072 3' -56.1 NC_004680.1 + 36149 0.71 0.411389
Target:  5'- gCCGGACgCAuCCCauGCCC-GCAGGGCGGc -3'
miRNA:   3'- -GGUUUG-GUuGGG--UGGGcCGUCCUGCU- -5'
18072 3' -56.1 NC_004680.1 + 34258 0.7 0.468492
Target:  5'- gCCcuGCCGagggauucACCaucCCCGGCAGGGCGc -3'
miRNA:   3'- -GGuuUGGU--------UGGgu-GGGCCGUCCUGCu -5'
18072 3' -56.1 NC_004680.1 + 25144 0.7 0.482397
Target:  5'- gCCAGGCCAACgCCACCaccaccuugucgUGGCGcagcggaaaaggugcGGACGGc -3'
miRNA:   3'- -GGUUUGGUUG-GGUGG------------GCCGU---------------CCUGCU- -5'
18072 3' -56.1 NC_004680.1 + 35750 0.7 0.496499
Target:  5'- cCCGAACCAAaagcgucgccgaCCGCCCGcuCAGGACu- -3'
miRNA:   3'- -GGUUUGGUUg-----------GGUGGGCc-GUCCUGcu -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.