miRNA display CGI


Results 1 - 11 of 11 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
12666 3' -59.9 NC_003345.1 + 71017 0.66 0.58091
Target:  5'- cGCGCCGaGGAugGUgAGCUgGUUUcGGUUg -3'
miRNA:   3'- -CGCGGC-CCU--CAgUCGAgCGAGuCCAG- -5'
12666 3' -59.9 NC_003345.1 + 7365 0.66 0.539871
Target:  5'- uCGCuCGuucGGAa-CGGCUUGCUCGGGUCu -3'
miRNA:   3'- cGCG-GC---CCUcaGUCGAGCGAGUCCAG- -5'
12666 3' -59.9 NC_003345.1 + 52253 0.67 0.509745
Target:  5'- aUGCgGGGAGUCucaAGCUCaucaaCgagCAGGUCg -3'
miRNA:   3'- cGCGgCCCUCAG---UCGAGc----Ga--GUCCAG- -5'
12666 3' -59.9 NC_003345.1 + 41580 0.67 0.47073
Target:  5'- uCGUCGGGgagAGUCcaCUCGCuucUCAGGUCg -3'
miRNA:   3'- cGCGGCCC---UCAGucGAGCG---AGUCCAG- -5'
12666 3' -59.9 NC_003345.1 + 59176 0.68 0.433291
Target:  5'- aGCGaCCGaguGGAGUCGGUcugaUUGUUCAGaGUCg -3'
miRNA:   3'- -CGC-GGC---CCUCAGUCG----AGCGAGUC-CAG- -5'
12666 3' -59.9 NC_003345.1 + 52864 0.68 0.415232
Target:  5'- cUGCCGGGAcuacgguaaaGUCucaguauaacGGCUCGCUCcGGUa -3'
miRNA:   3'- cGCGGCCCU----------CAG----------UCGAGCGAGuCCAg -5'
12666 3' -59.9 NC_003345.1 + 11000 0.7 0.355821
Target:  5'- -aGCCGcuauGUCGGCguucaUCGCUCGGGUCu -3'
miRNA:   3'- cgCGGCccu-CAGUCG-----AGCGAGUCCAG- -5'
12666 3' -59.9 NC_003345.1 + 4037 0.71 0.309855
Target:  5'- uGCGUCGGucGgcucucUCGGCUCGUUCgAGGUCa -3'
miRNA:   3'- -CGCGGCCcuC------AGUCGAGCGAG-UCCAG- -5'
12666 3' -59.9 NC_003345.1 + 69158 0.71 0.295572
Target:  5'- uCGCCGGG-GUCAGCuUCGaCUUccugaaggaAGGUCu -3'
miRNA:   3'- cGCGGCCCuCAGUCG-AGC-GAG---------UCCAG- -5'
12666 3' -59.9 NC_003345.1 + 69542 0.72 0.243565
Target:  5'- gGCGUCGGGuG--AGCUUGUUCAGGUUc -3'
miRNA:   3'- -CGCGGCCCuCagUCGAGCGAGUCCAG- -5'
12666 3' -59.9 NC_003345.1 + 63226 1.11 0.000417
Target:  5'- aGCGCCGGGAGUCAGCUCGCUCAGGUCu -3'
miRNA:   3'- -CGCGGCCCUCAGUCGAGCGAGUCCAG- -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.