miRNA display CGI


Results 1 - 20 of 33 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
7199 3' -60.7 NC_001900.1 + 38774 0.68 0.296879
Target:  5'- cUCCAaauacucGGCGGCUGGgcuuCCGUGCagGCu -3'
miRNA:   3'- cAGGU-------UCGCCGGCCacu-GGCACGg-CG- -5'
7199 3' -60.7 NC_001900.1 + 4285 0.66 0.420855
Target:  5'- -gCCAAGCGGgCGGUuccccaGAgCGUGgggagcccCCGCa -3'
miRNA:   3'- caGGUUCGCCgGCCA------CUgGCAC--------GGCG- -5'
7199 3' -60.7 NC_001900.1 + 7166 0.66 0.430105
Target:  5'- -gCC-AGCGGCuucauCGGUGGCCGggacuCCGUg -3'
miRNA:   3'- caGGuUCGCCG-----GCCACUGGCac---GGCG- -5'
7199 3' -60.7 NC_001900.1 + 18001 0.76 0.080879
Target:  5'- cGUCCAGGCGuucaccaagcugauGCCGGUcAUCGUGCCGg -3'
miRNA:   3'- -CAGGUUCGC--------------CGGCCAcUGGCACGGCg -5'
7199 3' -60.7 NC_001900.1 + 41072 0.75 0.106353
Target:  5'- cUCCGAGacguugcgggccaGGCCGGUGACCucgcgGCCGUg -3'
miRNA:   3'- cAGGUUCg------------CCGGCCACUGGca---CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 7958 0.73 0.144951
Target:  5'- cUCC--GCGGCCGGUGGCCGcaucgaGgCGCa -3'
miRNA:   3'- cAGGuuCGCCGGCCACUGGCa-----CgGCG- -5'
7199 3' -60.7 NC_001900.1 + 48594 0.72 0.165631
Target:  5'- -cCCAcuAGCGGCCGGUaGCCGcgugcauagGCUGCu -3'
miRNA:   3'- caGGU--UCGCCGGCCAcUGGCa--------CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 25679 0.71 0.193914
Target:  5'- -gUgAGGCGGCaCGGUcACCG-GCCGCu -3'
miRNA:   3'- caGgUUCGCCG-GCCAcUGGCaCGGCG- -5'
7199 3' -60.7 NC_001900.1 + 17262 0.7 0.226336
Target:  5'- -aCCGGGCucgGGCCGGUcaucucGACCG-GCaCGCa -3'
miRNA:   3'- caGGUUCG---CCGGCCA------CUGGCaCG-GCG- -5'
7199 3' -60.7 NC_001900.1 + 27448 0.66 0.402719
Target:  5'- cGUUCGAcGCGGaucagcCUGG-GGCCGaGCCGCa -3'
miRNA:   3'- -CAGGUU-CGCC------GGCCaCUGGCaCGGCG- -5'
7199 3' -60.7 NC_001900.1 + 5004 0.66 0.402719
Target:  5'- cUCCAgcacGGCGGCgGG-GGCCGguacUCGCa -3'
miRNA:   3'- cAGGU----UCGCCGgCCaCUGGCac--GGCG- -5'
7199 3' -60.7 NC_001900.1 + 6007 0.68 0.312288
Target:  5'- aUCgGcGCGaGCCGGUGACCu--CCGCg -3'
miRNA:   3'- cAGgUuCGC-CGGCCACUGGcacGGCG- -5'
7199 3' -60.7 NC_001900.1 + 48541 0.66 0.402719
Target:  5'- uGUCCGGGUGGCUguaaaGGgcacguagGGCaCGUGUgGCa -3'
miRNA:   3'- -CAGGUUCGCCGG-----CCa-------CUG-GCACGgCG- -5'
7199 3' -60.7 NC_001900.1 + 15447 0.67 0.335342
Target:  5'- -aUCGAGCuGCCGaucgaUGACCuUGCCGCa -3'
miRNA:   3'- caGGUUCGcCGGCc----ACUGGcACGGCG- -5'
7199 3' -60.7 NC_001900.1 + 26883 0.67 0.376464
Target:  5'- gGUCgCAA-CGGCCGGa-ACCGUcGCCGUc -3'
miRNA:   3'- -CAG-GUUcGCCGGCCacUGGCA-CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 40128 0.66 0.410819
Target:  5'- uUCCuggccAGCaGCCGcGUccagcagGACCGcUGCCGCg -3'
miRNA:   3'- cAGGu----UCGcCGGC-CA-------CUGGC-ACGGCG- -5'
7199 3' -60.7 NC_001900.1 + 2433 0.67 0.343298
Target:  5'- -gCCGGGUGGCUGuGUGAggucgacggccCCG-GCUGCg -3'
miRNA:   3'- caGGUUCGCCGGC-CACU-----------GGCaCGGCG- -5'
7199 3' -60.7 NC_001900.1 + 34858 0.67 0.351389
Target:  5'- -gCCAgaGGCaccGGCCcagaGGCCGUGCCGCc -3'
miRNA:   3'- caGGU--UCG---CCGGcca-CUGGCACGGCG- -5'
7199 3' -60.7 NC_001900.1 + 40294 0.69 0.27658
Target:  5'- -aCCGuGUGGCCGGUcGGCaGUgaGCCGCu -3'
miRNA:   3'- caGGUuCGCCGGCCA-CUGgCA--CGGCG- -5'
7199 3' -60.7 NC_001900.1 + 42850 0.67 0.367973
Target:  5'- -cCCAGGauGCCGGgGACgagaGUGCCGa -3'
miRNA:   3'- caGGUUCgcCGGCCaCUGg---CACGGCg -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.