miRNA display CGI


Results 1 - 20 of 31 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
7803 3' -54.7 NC_001973.1 + 31171 1.08 0.00498
Target:  5'- gCGGGCACGGACGAGUUUUGCACCGUGu -3'
miRNA:   3'- -GCCCGUGCCUGCUCAAAACGUGGCAC- -5'
7803 3' -54.7 NC_001973.1 + 38853 0.76 0.458061
Target:  5'- aGGGCGCGGGCGAacaaacuugGUUUUGCugCa-- -3'
miRNA:   3'- gCCCGUGCCUGCU---------CAAAACGugGcac -5'
7803 3' -54.7 NC_001973.1 + 8176 0.73 0.646168
Target:  5'- gCGGGUcgACGGACGAGc---GCGCCGa- -3'
miRNA:   3'- -GCCCG--UGCCUGCUCaaaaCGUGGCac -5'
7803 3' -54.7 NC_001973.1 + 108756 0.73 0.666575
Target:  5'- aCGcGGCGCGGGgGAGacaaUUGCGCCGa- -3'
miRNA:   3'- -GC-CCGUGCCUgCUCaa--AACGUGGCac -5'
7803 3' -54.7 NC_001973.1 + 75602 0.73 0.670645
Target:  5'- gCGGGCggaGCGGcaaucgacuccgaagACGAGUUgccUGCACCGUu -3'
miRNA:   3'- -GCCCG---UGCC---------------UGCUCAAa--ACGUGGCAc -5'
7803 3' -54.7 NC_001973.1 + 152336 0.72 0.716951
Target:  5'- gCGGuGCGCGGGCGGGgcgcgauaGCGCCGc- -3'
miRNA:   3'- -GCC-CGUGCCUGCUCaaaa----CGUGGCac -5'
7803 3' -54.7 NC_001973.1 + 56535 0.71 0.774909
Target:  5'- uCGGGCG-GGGCGGGcucgGCGCCGa- -3'
miRNA:   3'- -GCCCGUgCCUGCUCaaaaCGUGGCac -5'
7803 3' -54.7 NC_001973.1 + 95833 0.71 0.774909
Target:  5'- aCGGGCGCGGcgACGGGcccgGUGCCGg- -3'
miRNA:   3'- -GCCCGUGCC--UGCUCaaaaCGUGGCac -5'
7803 3' -54.7 NC_001973.1 + 132541 0.7 0.78141
Target:  5'- cCGGGCGCGGcgGCGggcucgagcgcggcGGUguggcGCGCCGUGu -3'
miRNA:   3'- -GCCCGUGCC--UGC--------------UCAaaa--CGUGGCAC- -5'
7803 3' -54.7 NC_001973.1 + 81101 0.69 0.836613
Target:  5'- uGGGCGCGGGCucGUUgaaggcgcgcUUGCGCCccgacGUGa -3'
miRNA:   3'- gCCCGUGCCUGcuCAA----------AACGUGG-----CAC- -5'
7803 3' -54.7 NC_001973.1 + 10759 0.69 0.844748
Target:  5'- gCGGGUGCGcGACGGGcucgucgugUUGCACCa-- -3'
miRNA:   3'- -GCCCGUGC-CUGCUCaa-------AACGUGGcac -5'
7803 3' -54.7 NC_001973.1 + 72907 0.69 0.865731
Target:  5'- uCGGGCGCGGAgcacgcgaucguuuCGAacGUgg-GCACCGa- -3'
miRNA:   3'- -GCCCGUGCCU--------------GCU--CAaaaCGUGGCac -5'
7803 3' -54.7 NC_001973.1 + 96753 0.68 0.882404
Target:  5'- cCGGaGCGCcGGCGAGUcggGCGgCGUGg -3'
miRNA:   3'- -GCC-CGUGcCUGCUCAaaaCGUgGCAC- -5'
7803 3' -54.7 NC_001973.1 + 135930 0.67 0.91914
Target:  5'- gCGGGCGCGG-CGAuGgcgcgccaagUGCGCCaaGUGg -3'
miRNA:   3'- -GCCCGUGCCuGCU-Caaa-------ACGUGG--CAC- -5'
7803 3' -54.7 NC_001973.1 + 56454 0.67 0.925753
Target:  5'- uCGGGCG-GGGCGGGcucgGCGCCa-- -3'
miRNA:   3'- -GCCCGUgCCUGCUCaaaaCGUGGcac -5'
7803 3' -54.7 NC_001973.1 + 120589 0.67 0.925753
Target:  5'- aCGGGCGCGc-CGAGUcgcggUGCGCCu-- -3'
miRNA:   3'- -GCCCGUGCcuGCUCAaa---ACGUGGcac -5'
7803 3' -54.7 NC_001973.1 + 35233 0.67 0.925753
Target:  5'- -cGGCGCGGACGAGa--UGUuCCGcUGg -3'
miRNA:   3'- gcCCGUGCCUGCUCaaaACGuGGC-AC- -5'
7803 3' -54.7 NC_001973.1 + 74688 0.67 0.925753
Target:  5'- aCGGGCACGGGCGcGcaUUUcGCgGCCGc- -3'
miRNA:   3'- -GCCCGUGCCUGCuC--AAAaCG-UGGCac -5'
7803 3' -54.7 NC_001973.1 + 56481 0.67 0.925753
Target:  5'- uCGGGCG-GGGCGGGcucgGCGCCa-- -3'
miRNA:   3'- -GCCCGUgCCUGCUCaaaaCGUGGcac -5'
7803 3' -54.7 NC_001973.1 + 89536 0.67 0.931002
Target:  5'- aGGGCgguGGGCGAGgcggUGCGCCc-- -3'
miRNA:   3'- gCCCGug-CCUGCUCaaa-ACGUGGcac -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.