miRNA display CGI


Results 1 - 20 of 25 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
7253 3' -62.7 NC_001900.1 + 267 0.66 0.319701
Target:  5'- aGGCGgCUCGCUaagagcgccuuuCGGGCGCUccUGAGUa -3'
miRNA:   3'- -UCGCgGAGCGG------------GUCCGCGAc-ACUCGg -5'
7253 3' -62.7 NC_001900.1 + 33786 0.66 0.31218
Target:  5'- cAGCuCCUgGCguuCCAGGCGCucuaccagacgUGcUGGGCCg -3'
miRNA:   3'- -UCGcGGAgCG---GGUCCGCG-----------AC-ACUCGG- -5'
7253 3' -62.7 NC_001900.1 + 30569 0.66 0.304795
Target:  5'- cAGUGCgCUgGCaCCGcuGGUGCccgacGUGAGCCg -3'
miRNA:   3'- -UCGCG-GAgCG-GGU--CCGCGa----CACUCGG- -5'
7253 3' -62.7 NC_001900.1 + 24873 0.66 0.304795
Target:  5'- cGUGCCacCGCCCgagaAGGUGgCUGUGGuGUCg -3'
miRNA:   3'- uCGCGGa-GCGGG----UCCGC-GACACU-CGG- -5'
7253 3' -62.7 NC_001900.1 + 2656 0.66 0.297544
Target:  5'- aGGUGCCU-GCUCcacccaggAGGUGaCUGUGGGCa -3'
miRNA:   3'- -UCGCGGAgCGGG--------UCCGC-GACACUCGg -5'
7253 3' -62.7 NC_001900.1 + 347 0.66 0.290428
Target:  5'- gAGCGCC-CGaa-AGGCGCUcuuaGcGAGCCg -3'
miRNA:   3'- -UCGCGGaGCgggUCCGCGA----CaCUCGG- -5'
7253 3' -62.7 NC_001900.1 + 4292 0.66 0.290428
Target:  5'- gGGCGgUUC-CCCAGaGCGUgggGAGCCc -3'
miRNA:   3'- -UCGCgGAGcGGGUC-CGCGacaCUCGG- -5'
7253 3' -62.7 NC_001900.1 + 16906 0.66 0.283446
Target:  5'- -aCGaCUUGCCCAGGUGCUGaaccUGAGaCg -3'
miRNA:   3'- ucGCgGAGCGGGUCCGCGAC----ACUCgG- -5'
7253 3' -62.7 NC_001900.1 + 39420 0.67 0.276597
Target:  5'- gAGCaGCCUUGaacuCCCGguggugcguGGCGCaccGUGGGCCg -3'
miRNA:   3'- -UCG-CGGAGC----GGGU---------CCGCGa--CACUCGG- -5'
7253 3' -62.7 NC_001900.1 + 30009 0.67 0.269882
Target:  5'- --gGCCUCGaucgacuaCCAGGCGCaG-GAGCUu -3'
miRNA:   3'- ucgCGGAGCg-------GGUCCGCGaCaCUCGG- -5'
7253 3' -62.7 NC_001900.1 + 16958 0.67 0.256845
Target:  5'- cGCuGCUguagCGUUC-GGCGCUG-GAGCCg -3'
miRNA:   3'- uCG-CGGa---GCGGGuCCGCGACaCUCGG- -5'
7253 3' -62.7 NC_001900.1 + 33024 0.67 0.256845
Target:  5'- uGCGCCUgcugcggaGCCCGagacuGGUGCUGcuGGCCa -3'
miRNA:   3'- uCGCGGAg-------CGGGU-----CCGCGACacUCGG- -5'
7253 3' -62.7 NC_001900.1 + 28251 0.67 0.244328
Target:  5'- aGGCcagCUCGCCgAGGCGCUGcugGAGaaCCa -3'
miRNA:   3'- -UCGcg-GAGCGGgUCCGCGACa--CUC--GG- -5'
7253 3' -62.7 NC_001900.1 + 25752 0.67 0.244328
Target:  5'- cGgGCCgCGCCCcGGCGCacgcgGAGCUu -3'
miRNA:   3'- uCgCGGaGCGGGuCCGCGaca--CUCGG- -5'
7253 3' -62.7 NC_001900.1 + 23142 0.68 0.224788
Target:  5'- gGGCGCa--GCCCGGGCGa-GgaccagaccgucguUGAGCCg -3'
miRNA:   3'- -UCGCGgagCGGGUCCGCgaC--------------ACUCGG- -5'
7253 3' -62.7 NC_001900.1 + 41710 0.69 0.199263
Target:  5'- cAGCgGCCUUGCUCAGGUuCUcUGAGgCCa -3'
miRNA:   3'- -UCG-CGGAGCGGGUCCGcGAcACUC-GG- -5'
7253 3' -62.7 NC_001900.1 + 137 0.69 0.194169
Target:  5'- cAGCGCCUgGgCgAGGCGCUcuagcGUcGGCCc -3'
miRNA:   3'- -UCGCGGAgCgGgUCCGCGA-----CAcUCGG- -5'
7253 3' -62.7 NC_001900.1 + 15548 0.69 0.189189
Target:  5'- cGGCcUCUCG-CCGGGCGgUG-GAGCCu -3'
miRNA:   3'- -UCGcGGAGCgGGUCCGCgACaCUCGG- -5'
7253 3' -62.7 NC_001900.1 + 3118 0.7 0.169482
Target:  5'- cAGCGCCUCGCCaAGGCGagcggcgggggGUGAugGUCc -3'
miRNA:   3'- -UCGCGGAGCGGgUCCGCga---------CACU--CGG- -5'
7253 3' -62.7 NC_001900.1 + 36580 0.71 0.145293
Target:  5'- cAGCGgacgagaUCGUCCAGGaGCUGUGGGUCu -3'
miRNA:   3'- -UCGCgg-----AGCGGGUCCgCGACACUCGG- -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.