miRNA display CGI


Results 1 - 20 of 24 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
15661 3' -55 NC_004065.1 + 17287 0.65 0.967247
Target:  5'- aGGUGGUGucggguGCGGCggagacaacgGCCUCGGAg -3'
miRNA:   3'- -UCGCCACuu----CGCUGacaa------CGGAGCUU- -5'
15661 3' -55 NC_004065.1 + 164616 0.66 0.962019
Target:  5'- aGGCGGgGAAGaGGCUcGcaGCCUCGGAg -3'
miRNA:   3'- -UCGCCaCUUCgCUGA-CaaCGGAGCUU- -5'
15661 3' -55 NC_004065.1 + 62370 0.66 0.958106
Target:  5'- cGGCGGUGGcggcgggggugguGGCGGCggggGUggcgGCCgCGGAu -3'
miRNA:   3'- -UCGCCACU-------------UCGCUGa---CAa---CGGaGCUU- -5'
15661 3' -55 NC_004065.1 + 575 0.66 0.954705
Target:  5'- gAGCcGUGAAGCGAgcGUU-CCUCGAGc -3'
miRNA:   3'- -UCGcCACUUCGCUgaCAAcGGAGCUU- -5'
15661 3' -55 NC_004065.1 + 52675 0.66 0.950712
Target:  5'- uGGCGGUGGcggauGCGACUGUUGagguagacccaUCUCuGGAu -3'
miRNA:   3'- -UCGCCACUu----CGCUGACAAC-----------GGAG-CUU- -5'
15661 3' -55 NC_004065.1 + 201281 0.66 0.949886
Target:  5'- cGGCGGUGGcgaGGCGccGCgcgcacgcgGCCUCGAGu -3'
miRNA:   3'- -UCGCCACU---UCGC--UGacaa-----CGGAGCUU- -5'
15661 3' -55 NC_004065.1 + 69821 0.67 0.946491
Target:  5'- cGGCGGacaUGAAGCGACUGUacgaggagaUGCgCaaGAAg -3'
miRNA:   3'- -UCGCC---ACUUCGCUGACA---------ACG-GagCUU- -5'
15661 3' -55 NC_004065.1 + 133276 0.67 0.946491
Target:  5'- cGGUGGUGAguucaucaggAGCGAgCUGUggGUCUCGu- -3'
miRNA:   3'- -UCGCCACU----------UCGCU-GACAa-CGGAGCuu -5'
15661 3' -55 NC_004065.1 + 209135 0.67 0.942039
Target:  5'- -cCGGUGAcGaGACUGUUGCUUCGc- -3'
miRNA:   3'- ucGCCACUuCgCUGACAACGGAGCuu -5'
15661 3' -55 NC_004065.1 + 154019 0.67 0.942039
Target:  5'- cGGCGGcgGcGGCGAC-GUUGUCaUCGAGa -3'
miRNA:   3'- -UCGCCa-CuUCGCUGaCAACGG-AGCUU- -5'
15661 3' -55 NC_004065.1 + 80148 0.67 0.937354
Target:  5'- cGCGGcaGAGGCGGCUGacgacggGCC-CGAAc -3'
miRNA:   3'- uCGCCa-CUUCGCUGACaa-----CGGaGCUU- -5'
15661 3' -55 NC_004065.1 + 48110 0.67 0.927275
Target:  5'- cGGCGGUGGcGGCGGCgGUggGaCCUCGc- -3'
miRNA:   3'- -UCGCCACU-UCGCUGaCAa-C-GGAGCuu -5'
15661 3' -55 NC_004065.1 + 10947 0.67 0.926747
Target:  5'- uAGCGGUGAgccaucucGGUG-CUGUacgggaucuuaccUGCCUUGAGc -3'
miRNA:   3'- -UCGCCACU--------UCGCuGACA-------------ACGGAGCUU- -5'
15661 3' -55 NC_004065.1 + 225868 0.68 0.910386
Target:  5'- gAGCGGUGGccacGGCGggccugacGCUGacccucggGCCUCGAGc -3'
miRNA:   3'- -UCGCCACU----UCGC--------UGACaa------CGGAGCUU- -5'
15661 3' -55 NC_004065.1 + 177796 0.68 0.891396
Target:  5'- uGGCGGUGggGUGuugggcGCUGUUGgCgcgCGGu -3'
miRNA:   3'- -UCGCCACuuCGC------UGACAACgGa--GCUu -5'
15661 3' -55 NC_004065.1 + 103399 0.69 0.877604
Target:  5'- uGGCGGUGcuacGCGuGCUGaacGCCUCGGAc -3'
miRNA:   3'- -UCGCCACuu--CGC-UGACaa-CGGAGCUU- -5'
15661 3' -55 NC_004065.1 + 62868 0.69 0.862947
Target:  5'- cAGCGGUGuGGCGGuCUGcugGCCUCc-- -3'
miRNA:   3'- -UCGCCACuUCGCU-GACaa-CGGAGcuu -5'
15661 3' -55 NC_004065.1 + 61024 0.7 0.839432
Target:  5'- aGGCGGgagGccGCGGCccUGUgcgGCCUCGAc -3'
miRNA:   3'- -UCGCCa--CuuCGCUG--ACAa--CGGAGCUu -5'
15661 3' -55 NC_004065.1 + 200789 0.71 0.759674
Target:  5'- cGGCGGUGGcgGGCGAC-GgcGUCUCGGc -3'
miRNA:   3'- -UCGCCACU--UCGCUGaCaaCGGAGCUu -5'
15661 3' -55 NC_004065.1 + 151997 0.72 0.70109
Target:  5'- uGCGGUGGucguAGCGGCUcucgaggGCCUCGGAc -3'
miRNA:   3'- uCGCCACU----UCGCUGAcaa----CGGAGCUU- -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.