miRNA display CGI


Results 1 - 20 of 38 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
12989 3' -65.9 NC_003387.1 + 2973 0.67 0.200088
Target:  5'- aUGGGCCUCGcUCGGG-GCCucGCGAg -3'
miRNA:   3'- cACCCGGAGCcGGUCCaCGGccCGCU- -5'
12989 3' -65.9 NC_003387.1 + 4515 0.66 0.221109
Target:  5'- -cGGGucaCCUCGGCCGccgccgccGGUGC-GGGCa- -3'
miRNA:   3'- caCCC---GGAGCCGGU--------CCACGgCCCGcu -5'
12989 3' -65.9 NC_003387.1 + 4578 0.66 0.243388
Target:  5'- -cGGGCCUCGGUggcgcgcugcgcgCGGGUcuGCCacgugaucGGCGAg -3'
miRNA:   3'- caCCCGGAGCCG-------------GUCCA--CGGc-------CCGCU- -5'
12989 3' -65.9 NC_003387.1 + 6372 0.69 0.147185
Target:  5'- --uGGCCUCGGCCGcGGgcgacgccuUGCgUGGGCGGc -3'
miRNA:   3'- cacCCGGAGCCGGU-CC---------ACG-GCCCGCU- -5'
12989 3' -65.9 NC_003387.1 + 8065 0.66 0.221109
Target:  5'- -cGGcagccCCUCGGCCAGGaucGCCGaGGCc- -3'
miRNA:   3'- caCCc----GGAGCCGGUCCa--CGGC-CCGcu -5'
12989 3' -65.9 NC_003387.1 + 8771 0.67 0.176276
Target:  5'- -cGGGCCUUcGCCGugcGGcGgCGGGCGAc -3'
miRNA:   3'- caCCCGGAGcCGGU---CCaCgGCCCGCU- -5'
12989 3' -65.9 NC_003387.1 + 9735 0.71 0.101763
Target:  5'- -cGGGUCggcgucaaggUCGGCCAGGcucacgcgcaUGCCGgGGCGGc -3'
miRNA:   3'- caCCCGG----------AGCCGGUCC----------ACGGC-CCGCU- -5'
12989 3' -65.9 NC_003387.1 + 10137 0.67 0.205174
Target:  5'- -cGGGgCUCGGCCuucucccacAGGUGCaGGuGCGc -3'
miRNA:   3'- caCCCgGAGCCGG---------UCCACGgCC-CGCu -5'
12989 3' -65.9 NC_003387.1 + 10513 0.67 0.200088
Target:  5'- -gGGGCgCUCGGCUcGGcgaugcggGCCGGGUu- -3'
miRNA:   3'- caCCCG-GAGCCGGuCCa-------CGGCCCGcu -5'
12989 3' -65.9 NC_003387.1 + 10685 0.68 0.155019
Target:  5'- -cGGccGCCUCGGCgGuggccgccGGUaucaaGCCGGGCGAg -3'
miRNA:   3'- caCC--CGGAGCCGgU--------CCA-----CGGCCCGCU- -5'
12989 3' -65.9 NC_003387.1 + 11353 0.69 0.139713
Target:  5'- uUGGGCCgucacugcagaCGGCCGGGUcGUCGuuugcGGCGAu -3'
miRNA:   3'- cACCCGGa----------GCCGGUCCA-CGGC-----CCGCU- -5'
12989 3' -65.9 NC_003387.1 + 12199 0.67 0.200088
Target:  5'- -cGGGCaggUCGcuGCUcGGUGCCGGGCc- -3'
miRNA:   3'- caCCCGg--AGC--CGGuCCACGGCCCGcu -5'
12989 3' -65.9 NC_003387.1 + 12595 0.68 0.159076
Target:  5'- cGUGGGCCUUGaacuugcccgacGCCGGGccGCCGccuGCGAg -3'
miRNA:   3'- -CACCCGGAGC------------CGGUCCa-CGGCc--CGCU- -5'
12989 3' -65.9 NC_003387.1 + 20255 0.67 0.176276
Target:  5'- aUGGGCUUUcgGGCCGGGUuuuUCGGGCu- -3'
miRNA:   3'- cACCCGGAG--CCGGUCCAc--GGCCCGcu -5'
12989 3' -65.9 NC_003387.1 + 22889 0.67 0.190244
Target:  5'- -gGGcGCCUCGuguagcagauuGCUAcGG-GCCGGGCGGg -3'
miRNA:   3'- caCC-CGGAGC-----------CGGU-CCaCGGCCCGCU- -5'
12989 3' -65.9 NC_003387.1 + 22963 0.68 0.159076
Target:  5'- cGUGGGgCgcccCGGUCAucGUGUCGGGCGGc -3'
miRNA:   3'- -CACCCgGa---GCCGGUc-CACGGCCCGCU- -5'
12989 3' -65.9 NC_003387.1 + 25865 0.67 0.190244
Target:  5'- gGUGGccugcaguuGCCgagCGGCCuGGUGCUccccggcguccaGGGCGGc -3'
miRNA:   3'- -CACC---------CGGa--GCCGGuCCACGG------------CCCGCU- -5'
12989 3' -65.9 NC_003387.1 + 27943 0.66 0.238086
Target:  5'- -gGGGgCUCGGUCGGGgcGCUcGGCGu -3'
miRNA:   3'- caCCCgGAGCCGGUCCa-CGGcCCGCu -5'
12989 3' -65.9 NC_003387.1 + 28304 0.7 0.121568
Target:  5'- cUGGGCacccCUCGGUaucgCGGGcgugcagaucagccUGCCGGGCGAc -3'
miRNA:   3'- cACCCG----GAGCCG----GUCC--------------ACGGCCCGCU- -5'
12989 3' -65.9 NC_003387.1 + 29568 0.69 0.129157
Target:  5'- uGUGGGUgCUCgacuucgaGGCCgAGGggccggaGCCGGGCGAc -3'
miRNA:   3'- -CACCCG-GAG--------CCGG-UCCa------CGGCCCGCU- -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.