miRNA display CGI


Results 1 - 20 of 21 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
30827 3' -55.2 NC_006552.1 + 32500 0.66 0.807813
Target:  5'- cGCGCGugGaCGGcaucACGGGagcgCGCCAa- -3'
miRNA:   3'- -CGCGCugC-GCCu---UGUCCaa--GUGGUgc -5'
30827 3' -55.2 NC_006552.1 + 39284 0.66 0.807813
Target:  5'- aGCGCugccGGCGCaGGAagcgGCAGGccucccagucgUCGCCGCa -3'
miRNA:   3'- -CGCG----CUGCG-CCU----UGUCCa----------AGUGGUGc -5'
30827 3' -55.2 NC_006552.1 + 50083 0.66 0.788936
Target:  5'- aGCGCGACaaccgcacgcggGCGGAACGcGcagCACgGCGg -3'
miRNA:   3'- -CGCGCUG------------CGCCUUGUcCaa-GUGgUGC- -5'
30827 3' -55.2 NC_006552.1 + 31905 0.66 0.787975
Target:  5'- aGCGCGGCGCGGuucggaucgaacGACuccauucGGGgaugcugaaGCCGCGa -3'
miRNA:   3'- -CGCGCUGCGCC------------UUG-------UCCaag------UGGUGC- -5'
30827 3' -55.2 NC_006552.1 + 25242 0.66 0.779259
Target:  5'- aGCuGCGACGCuGuGGCGauGGUuacggUCGCCACGg -3'
miRNA:   3'- -CG-CGCUGCGcC-UUGU--CCA-----AGUGGUGC- -5'
30827 3' -55.2 NC_006552.1 + 55340 0.66 0.779259
Target:  5'- -gGCGAcCGCGacuucGugGGGUUCAgCCGCGa -3'
miRNA:   3'- cgCGCU-GCGCc----UugUCCAAGU-GGUGC- -5'
30827 3' -55.2 NC_006552.1 + 26809 0.66 0.769435
Target:  5'- uGC-CGGC-CGGcGACAGGUcuauguUCACCGCa -3'
miRNA:   3'- -CGcGCUGcGCC-UUGUCCA------AGUGGUGc -5'
30827 3' -55.2 NC_006552.1 + 32440 0.67 0.759477
Target:  5'- cGUGCGAacucgGCGGAuCAGGUcgGCCAgCGu -3'
miRNA:   3'- -CGCGCUg----CGCCUuGUCCAagUGGU-GC- -5'
30827 3' -55.2 NC_006552.1 + 28252 0.67 0.749394
Target:  5'- uGCGCGGauCGCcGAACAGGUcUUugUGCGc -3'
miRNA:   3'- -CGCGCU--GCGcCUUGUCCA-AGugGUGC- -5'
30827 3' -55.2 NC_006552.1 + 60040 0.67 0.739198
Target:  5'- gGCGUGACGUGGuu--GGggCugCGCu -3'
miRNA:   3'- -CGCGCUGCGCCuuguCCaaGugGUGc -5'
30827 3' -55.2 NC_006552.1 + 3013 0.67 0.739198
Target:  5'- -aGCG-CGCGGAGCAGaucGUgcucCACCAgGg -3'
miRNA:   3'- cgCGCuGCGCCUUGUC---CAa---GUGGUgC- -5'
30827 3' -55.2 NC_006552.1 + 64590 0.67 0.714325
Target:  5'- aGCGuCGACGUGGuACuggucauggcccuGGUgcuccagCACCACGg -3'
miRNA:   3'- -CGC-GCUGCGCCuUGu------------CCAa------GUGGUGC- -5'
30827 3' -55.2 NC_006552.1 + 57821 0.67 0.708032
Target:  5'- uCGCGAaaaGGGACAGGUcCACCGg- -3'
miRNA:   3'- cGCGCUgcgCCUUGUCCAaGUGGUgc -5'
30827 3' -55.2 NC_006552.1 + 41764 0.68 0.701713
Target:  5'- aGCG-GGCGCcgucGGACAGGUUgcggguauccaucagCACCACGc -3'
miRNA:   3'- -CGCgCUGCGc---CUUGUCCAA---------------GUGGUGC- -5'
30827 3' -55.2 NC_006552.1 + 52008 0.68 0.696429
Target:  5'- cCGCGGCGCGccagcaacucgccGAGCAGGagacaccCGCCGCu -3'
miRNA:   3'- cGCGCUGCGC-------------CUUGUCCaa-----GUGGUGc -5'
30827 3' -55.2 NC_006552.1 + 11103 0.68 0.676226
Target:  5'- cGCGCccCuuGGAgaacgGCGGGUUCAUCACGa -3'
miRNA:   3'- -CGCGcuGcgCCU-----UGUCCAAGUGGUGC- -5'
30827 3' -55.2 NC_006552.1 + 50028 0.68 0.66553
Target:  5'- cGCGCuGAC-UGGuACAGGUUCuacGCCACc -3'
miRNA:   3'- -CGCG-CUGcGCCuUGUCCAAG---UGGUGc -5'
30827 3' -55.2 NC_006552.1 + 63136 0.69 0.616097
Target:  5'- aGCGCGGCgaacacccgcacaccGCGGAGCAGGcgaACCugcCGa -3'
miRNA:   3'- -CGCGCUG---------------CGCCUUGUCCaagUGGu--GC- -5'
30827 3' -55.2 NC_006552.1 + 55188 0.7 0.579688
Target:  5'- cGCGCGACGCuGAGCuGGGUaacUC-CCAgGu -3'
miRNA:   3'- -CGCGCUGCGcCUUG-UCCA---AGuGGUgC- -5'
30827 3' -55.2 NC_006552.1 + 22268 0.73 0.418924
Target:  5'- --cUGGCGCGGAGCcGGUcgcUCGCCGCa -3'
miRNA:   3'- cgcGCUGCGCCUUGuCCA---AGUGGUGc -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.