miRNA display CGI


Results 1 - 20 of 29 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
14724 3' -49.9 NC_003529.1 + 12324 0.66 0.996741
Target:  5'- gGAGACAUgAUGCGUC-UCGACAuGCAu -3'
miRNA:   3'- aUUCUGUG-UGUGCGGcAGCUGUuUGU- -5'
14724 3' -49.9 NC_003529.1 + 100254 0.66 0.995493
Target:  5'- -cGGGCGC-CACGUCGUgcUGAcCAAACAc -3'
miRNA:   3'- auUCUGUGuGUGCGGCA--GCU-GUUUGU- -5'
14724 3' -49.9 NC_003529.1 + 89516 0.66 0.994737
Target:  5'- -----gGCAUGCGCUGUCGACu-GCAu -3'
miRNA:   3'- auucugUGUGUGCGGCAGCUGuuUGU- -5'
14724 3' -49.9 NC_003529.1 + 68107 0.66 0.994737
Target:  5'- --uGACACAUuucguGCGCCaacguGUCGACAAGg- -3'
miRNA:   3'- auuCUGUGUG-----UGCGG-----CAGCUGUUUgu -5'
14724 3' -49.9 NC_003529.1 + 66713 0.66 0.994737
Target:  5'- -uGGA-ACACAauguucUGCuCGUCGACAAGCAa -3'
miRNA:   3'- auUCUgUGUGU------GCG-GCAGCUGUUUGU- -5'
14724 3' -49.9 NC_003529.1 + 8567 0.66 0.994407
Target:  5'- uUGAGGCGCAgGCGaCCGcgcgcguagucggCGGCGAACc -3'
miRNA:   3'- -AUUCUGUGUgUGC-GGCa------------GCUGUUUGu -5'
14724 3' -49.9 NC_003529.1 + 23364 0.67 0.993881
Target:  5'- aAAGGCGUAaaguuUGCCGUCGACAcgGACGa -3'
miRNA:   3'- aUUCUGUGUgu---GCGGCAGCUGU--UUGU- -5'
14724 3' -49.9 NC_003529.1 + 68584 0.67 0.992917
Target:  5'- ---aACACGuggucgaGCGCCGUCGACuuuGGCAu -3'
miRNA:   3'- auucUGUGUg------UGCGGCAGCUGu--UUGU- -5'
14724 3' -49.9 NC_003529.1 + 135020 0.67 0.992917
Target:  5'- -uAGGCACGCAauauguucaGCuUGUUGGCAAACGa -3'
miRNA:   3'- auUCUGUGUGUg--------CG-GCAGCUGUUUGU- -5'
14724 3' -49.9 NC_003529.1 + 65784 0.67 0.992917
Target:  5'- -uGGuguCGCGCuGCGUCGUCGACAAu-- -3'
miRNA:   3'- auUCu--GUGUG-UGCGGCAGCUGUUugu -5'
14724 3' -49.9 NC_003529.1 + 127445 0.67 0.991835
Target:  5'- aAAGACcaucaacaaACugACGCgCGUCuACAAGCAa -3'
miRNA:   3'- aUUCUG---------UGugUGCG-GCAGcUGUUUGU- -5'
14724 3' -49.9 NC_003529.1 + 78778 0.67 0.990626
Target:  5'- -cAGAUAUACGCGaaGUaugGACAAACAu -3'
miRNA:   3'- auUCUGUGUGUGCggCAg--CUGUUUGU- -5'
14724 3' -49.9 NC_003529.1 + 77464 0.67 0.989281
Target:  5'- gGAGAUAcCGCACGUCGugguguucgaucUCGACAAcACAc -3'
miRNA:   3'- aUUCUGU-GUGUGCGGC------------AGCUGUU-UGU- -5'
14724 3' -49.9 NC_003529.1 + 56207 0.67 0.989281
Target:  5'- --cGGCGCACcauaucaGUCGUgGACAGACAc -3'
miRNA:   3'- auuCUGUGUGug-----CGGCAgCUGUUUGU- -5'
14724 3' -49.9 NC_003529.1 + 137360 0.68 0.98779
Target:  5'- aUAAGGCcgugcuuuuguGCGCGCGCCGcucuuaCGACAGuACAg -3'
miRNA:   3'- -AUUCUG-----------UGUGUGCGGCa-----GCUGUU-UGU- -5'
14724 3' -49.9 NC_003529.1 + 54582 0.68 0.986143
Target:  5'- gGAGACAUugaacgucuGCugGCCGaacUCGACGcGCGc -3'
miRNA:   3'- aUUCUGUG---------UGugCGGC---AGCUGUuUGU- -5'
14724 3' -49.9 NC_003529.1 + 9992 0.69 0.977813
Target:  5'- aAAGGCGcCACgGCGCCGgCGGCGAGgAg -3'
miRNA:   3'- aUUCUGU-GUG-UGCGGCaGCUGUUUgU- -5'
14724 3' -49.9 NC_003529.1 + 17016 0.69 0.975249
Target:  5'- cAAGugGCACGCGCCGaguAUAAACu -3'
miRNA:   3'- aUUCugUGUGUGCGGCagcUGUUUGu -5'
14724 3' -49.9 NC_003529.1 + 110782 0.69 0.972476
Target:  5'- aAAGACACACuaaaaACGuCCGUgGACG-ACAu -3'
miRNA:   3'- aUUCUGUGUG-----UGC-GGCAgCUGUuUGU- -5'
14724 3' -49.9 NC_003529.1 + 108954 0.69 0.966269
Target:  5'- --cGACAguUugAUGCCGUCGGC-AGCAu -3'
miRNA:   3'- auuCUGU--GugUGCGGCAGCUGuUUGU- -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.