miRNA display CGI


Results 1 - 20 of 39 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
7671 3' -60.3 NC_001973.1 + 75574 0.66 0.778085
Target:  5'- aGCGGGCGgagcggaCGGAG-CGGGCggaGCGGgcgGAGc -3'
miRNA:   3'- -CGCUCGC-------GCCUCgGCUCG---UGCCa--CUC- -5'
7671 3' -60.3 NC_001973.1 + 33989 0.66 0.776292
Target:  5'- aGCGAGUugauGCGGuuGUCGAGCGCgucguccacggcccGGUcGAGg -3'
miRNA:   3'- -CGCUCG----CGCCu-CGGCUCGUG--------------CCA-CUC- -5'
7671 3' -60.3 NC_001973.1 + 95308 0.66 0.773595
Target:  5'- cGCGAGCGCGcgccgcgcguucgucGAGUCG-GCGCGc-GAGu -3'
miRNA:   3'- -CGCUCGCGC---------------CUCGGCuCGUGCcaCUC- -5'
7671 3' -60.3 NC_001973.1 + 124803 0.66 0.760869
Target:  5'- gGCGAGgGcCGGGGCCucGAucGgACGGUcGAGg -3'
miRNA:   3'- -CGCUCgC-GCCUCGG--CU--CgUGCCA-CUC- -5'
7671 3' -60.3 NC_001973.1 + 152335 0.66 0.751651
Target:  5'- cGCGGuGCGCGG-GCgGGGCGCGa---- -3'
miRNA:   3'- -CGCU-CGCGCCuCGgCUCGUGCcacuc -5'
7671 3' -60.3 NC_001973.1 + 21653 0.66 0.732931
Target:  5'- ---cGCGCGGcaGGCCGAGCACGu---- -3'
miRNA:   3'- cgcuCGCGCC--UCGGCUCGUGCcacuc -5'
7671 3' -60.3 NC_001973.1 + 96037 0.66 0.722492
Target:  5'- cGCGAGCuCGG-GCUGGGCGgucuguuCGcGUGGGa -3'
miRNA:   3'- -CGCUCGcGCCuCGGCUCGU-------GC-CACUC- -5'
7671 3' -60.3 NC_001973.1 + 120589 0.67 0.713886
Target:  5'- aCGGGCGC---GCCGAGuCGCGGUGc- -3'
miRNA:   3'- cGCUCGCGccuCGGCUC-GUGCCACuc -5'
7671 3' -60.3 NC_001973.1 + 20924 0.67 0.712927
Target:  5'- cGCGAGCcgauuGCGuucugucGAGCCG-GCGCGGUa-- -3'
miRNA:   3'- -CGCUCG-----CGC-------CUCGGCuCGUGCCAcuc -5'
7671 3' -60.3 NC_001973.1 + 44455 0.67 0.712927
Target:  5'- cGCGGGCGCucggggaucgaacGGGcGCuCGGGCGCGGg--- -3'
miRNA:   3'- -CGCUCGCG-------------CCU-CG-GCUCGUGCCacuc -5'
7671 3' -60.3 NC_001973.1 + 5716 0.67 0.694583
Target:  5'- -gGAGCGCGucGCCccGCugGGUGGu -3'
miRNA:   3'- cgCUCGCGCcuCGGcuCGugCCACUc -5'
7671 3' -60.3 NC_001973.1 + 39404 0.68 0.645616
Target:  5'- gGCGcGCGCcaGGUCGGcCGCGGUGAGg -3'
miRNA:   3'- -CGCuCGCGccUCGGCUcGUGCCACUC- -5'
7671 3' -60.3 NC_001973.1 + 70121 0.68 0.625907
Target:  5'- gGCGccCGCGGcgauGUCGAGCAUGGUGc- -3'
miRNA:   3'- -CGCucGCGCCu---CGGCUCGUGCCACuc -5'
7671 3' -60.3 NC_001973.1 + 120942 0.68 0.625907
Target:  5'- uCGAGCGCGGucugcacggcGGCC-AGCGCGGcGGu -3'
miRNA:   3'- cGCUCGCGCC----------UCGGcUCGUGCCaCUc -5'
7671 3' -60.3 NC_001973.1 + 55635 0.68 0.615071
Target:  5'- cGCGugcaggucgcucaAGCGCgucggaugGGAGCCGAgGCcgGCGGUGAa -3'
miRNA:   3'- -CGC-------------UCGCG--------CCUCGGCU-CG--UGCCACUc -5'
7671 3' -60.3 NC_001973.1 + 146027 0.69 0.596394
Target:  5'- uCGAGCGCGG-GUCGAcGgACGGggcGAGu -3'
miRNA:   3'- cGCUCGCGCCuCGGCU-CgUGCCa--CUC- -5'
7671 3' -60.3 NC_001973.1 + 7919 0.69 0.596394
Target:  5'- uGCGAG-GCGGAGCgCGuguGCGCGGc--- -3'
miRNA:   3'- -CGCUCgCGCCUCG-GCu--CGUGCCacuc -5'
7671 3' -60.3 NC_001973.1 + 6844 0.69 0.586596
Target:  5'- cGCGAGUGCgcucgacggaGGGGCUGAGcCGCGaG-GAGa -3'
miRNA:   3'- -CGCUCGCG----------CCUCGGCUC-GUGC-CaCUC- -5'
7671 3' -60.3 NC_001973.1 + 94033 0.69 0.586596
Target:  5'- -aGAGCGCuGGGacuGCUGAGCGCGGa--- -3'
miRNA:   3'- cgCUCGCG-CCU---CGGCUCGUGCCacuc -5'
7671 3' -60.3 NC_001973.1 + 120696 0.69 0.580731
Target:  5'- ---cGCGUGGAGCUguacuacucgcaucuGAGCGCGGcGAGa -3'
miRNA:   3'- cgcuCGCGCCUCGG---------------CUCGUGCCaCUC- -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.