miRNA display CGI


Results 1 - 13 of 13 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
23249 3' -49.2 NC_005259.1 + 63336 0.66 0.983629
Target:  5'- gCCugGcAGAUCAGGUccaUGaCGGGCuuGa -3'
miRNA:   3'- -GGugU-UCUAGUUCAa--ACaGUCCGggC- -5'
23249 3' -49.2 NC_005259.1 + 19156 0.66 0.983629
Target:  5'- aCCGauCAGGGUCGAGguucGUCGGcGCUCa -3'
miRNA:   3'- -GGU--GUUCUAGUUCaaa-CAGUC-CGGGc -5'
23249 3' -49.2 NC_005259.1 + 5237 0.66 0.981467
Target:  5'- aCGCuGAGAUCGA---UGUguGGCUCGg -3'
miRNA:   3'- gGUG-UUCUAGUUcaaACAguCCGGGC- -5'
23249 3' -49.2 NC_005259.1 + 32764 0.66 0.975411
Target:  5'- aCCGCGaacAGAUCGAGUUgcguggcacccgaGUCGuaGCCCGa -3'
miRNA:   3'- -GGUGU---UCUAGUUCAAa------------CAGUc-CGGGC- -5'
23249 3' -49.2 NC_005259.1 + 68676 0.67 0.970643
Target:  5'- gCCACGGGAuggccuucucgaugaUCGAGgcgggcagcgcGUCGGuGCCCGa -3'
miRNA:   3'- -GGUGUUCU---------------AGUUCaaa--------CAGUC-CGGGC- -5'
23249 3' -49.2 NC_005259.1 + 4215 0.67 0.9623
Target:  5'- cUCAuCGAGAUCGAGcaggccaagCAGGCCCc -3'
miRNA:   3'- -GGU-GUUCUAGUUCaaaca----GUCCGGGc -5'
23249 3' -49.2 NC_005259.1 + 49476 0.67 0.955899
Target:  5'- gUCGCccuuGAacUCAAGUUUGUCguAGGUCCa -3'
miRNA:   3'- -GGUGuu--CU--AGUUCAAACAG--UCCGGGc -5'
23249 3' -49.2 NC_005259.1 + 58337 0.68 0.951544
Target:  5'- -aGCGAGAUCAGGUcgGU--GGCCuCGg -3'
miRNA:   3'- ggUGUUCUAGUUCAaaCAguCCGG-GC- -5'
23249 3' -49.2 NC_005259.1 + 834 0.69 0.925516
Target:  5'- aCCACGAGAcCAAGgucgcUGcgCAGGCCg- -3'
miRNA:   3'- -GGUGUUCUaGUUCaa---ACa-GUCCGGgc -5'
23249 3' -49.2 NC_005259.1 + 49075 0.7 0.892288
Target:  5'- gCGCAAGGgaucgcUCGAGggUGUCAuGGCCg- -3'
miRNA:   3'- gGUGUUCU------AGUUCaaACAGU-CCGGgc -5'
23249 3' -49.2 NC_005259.1 + 23194 0.73 0.755201
Target:  5'- -gACGAGAUCGuGUUcGUguGGCCCa -3'
miRNA:   3'- ggUGUUCUAGUuCAAaCAguCCGGGc -5'
23249 3' -49.2 NC_005259.1 + 10396 0.73 0.744583
Target:  5'- cCCGCAGGAUCucgc---UCAGGCCCu -3'
miRNA:   3'- -GGUGUUCUAGuucaaacAGUCCGGGc -5'
23249 3' -49.2 NC_005259.1 + 38007 1.11 0.004426
Target:  5'- uCCACAAGAUCAAGUUUGUCAGGCCCGc -3'
miRNA:   3'- -GGUGUUCUAGUUCAAACAGUCCGGGC- -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.