miRNA display CGI


Results 1 - 20 of 23 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
5201 5' -52.5 NC_001798.1 + 72477 0.66 0.979526
Target:  5'- cCGUGGUCgcAGACGCccacgAGCGCcuGGGGc- -3'
miRNA:   3'- aGCACCAG--UCUGCG-----UUGCGu-CUCUuu -5'
5201 5' -52.5 NC_001798.1 + 67672 0.66 0.979526
Target:  5'- -gGUGGcUCGGACGCGAUGaacGGAAAc -3'
miRNA:   3'- agCACC-AGUCUGCGUUGCgucUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 44033 0.66 0.979526
Target:  5'- aCGUGGcUCcGGCGCcccccaAGCGCGGAGc-- -3'
miRNA:   3'- aGCACC-AGuCUGCG------UUGCGUCUCuuu -5'
5201 5' -52.5 NC_001798.1 + 134054 0.66 0.97714
Target:  5'- aUC-UGGUCuGuCGCGACGCcgcGGGGGAGg -3'
miRNA:   3'- -AGcACCAGuCuGCGUUGCG---UCUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 117071 0.66 0.976891
Target:  5'- cCGUGGUgCAGcacgcccgcgagaGCGCGGCG-GGGGAGAa -3'
miRNA:   3'- aGCACCA-GUC-------------UGCGUUGCgUCUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 43690 0.66 0.976386
Target:  5'- -gGUGGUCAcggcccggagaugcGugGCcaGGCGCGGGGGGc -3'
miRNA:   3'- agCACCAGU--------------CugCG--UUGCGUCUCUUu -5'
5201 5' -52.5 NC_001798.1 + 46197 0.66 0.968761
Target:  5'- cCGUcGGcCGcGCGCAauACGCGGAGGGAc -3'
miRNA:   3'- aGCA-CCaGUcUGCGU--UGCGUCUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 136766 0.67 0.965536
Target:  5'- gCGUGuucaggaucCAGugGCAGCuGCGGAGGAGa -3'
miRNA:   3'- aGCACca-------GUCugCGUUG-CGUCUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 4204 0.67 0.958399
Target:  5'- gCGUGGUCugcGGCGCug-GCGGGGGc- -3'
miRNA:   3'- aGCACCAGu--CUGCGuugCGUCUCUuu -5'
5201 5' -52.5 NC_001798.1 + 15467 0.67 0.954476
Target:  5'- gCGUGGgUAGACGUGG-GCGGGGggGu -3'
miRNA:   3'- aGCACCaGUCUGCGUUgCGUCUCuuU- -5'
5201 5' -52.5 NC_001798.1 + 58981 0.67 0.954476
Target:  5'- gUCGgcGGcCGGGCG-AACGCGGGGggGg -3'
miRNA:   3'- -AGCa-CCaGUCUGCgUUGCGUCUCuuU- -5'
5201 5' -52.5 NC_001798.1 + 31789 0.68 0.945896
Target:  5'- gCG-GGUCGGGaggGCcgGGCGCGGAGGGAg -3'
miRNA:   3'- aGCaCCAGUCUg--CG--UUGCGUCUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 111103 0.68 0.945441
Target:  5'- cCGgGGUCAGGCGUugcgaguccacaaAGCGCAGcAGGGc -3'
miRNA:   3'- aGCaCCAGUCUGCG-------------UUGCGUC-UCUUu -5'
5201 5' -52.5 NC_001798.1 + 125704 0.68 0.931147
Target:  5'- cCGacGUCGGGCGCG-CGCGGGGGc- -3'
miRNA:   3'- aGCacCAGUCUGCGUuGCGUCUCUuu -5'
5201 5' -52.5 NC_001798.1 + 2326 0.68 0.925722
Target:  5'- ---gGGcCGGGCGCcacGGCGCGGGGAAGa -3'
miRNA:   3'- agcaCCaGUCUGCG---UUGCGUCUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 130201 0.68 0.920041
Target:  5'- gCGUGGUgGGAcaCGCucGCGUAGGGGGu -3'
miRNA:   3'- aGCACCAgUCU--GCGu-UGCGUCUCUUu -5'
5201 5' -52.5 NC_001798.1 + 145368 0.69 0.914106
Target:  5'- aCGUgauaGGUCuugggaacccgAGGgGCGACGCGGGGAAAg -3'
miRNA:   3'- aGCA----CCAG-----------UCUgCGUUGCGUCUCUUU- -5'
5201 5' -52.5 NC_001798.1 + 57540 0.69 0.914106
Target:  5'- uUCGgggGG-CGGAUGCGuuccgcggggACGCGGAGggGg -3'
miRNA:   3'- -AGCa--CCaGUCUGCGU----------UGCGUCUCuuU- -5'
5201 5' -52.5 NC_001798.1 + 139702 0.69 0.914106
Target:  5'- gCGUGGUCacGGGCGCcaccgaaucgcGGCGCAGAa--- -3'
miRNA:   3'- aGCACCAG--UCUGCG-----------UUGCGUCUcuuu -5'
5201 5' -52.5 NC_001798.1 + 55457 0.69 0.887853
Target:  5'- gUCGuUGGUCGGugGguGgGguGGGGGAa -3'
miRNA:   3'- -AGC-ACCAGUCugCguUgCguCUCUUU- -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.