miRNA display CGI


Results 1 - 20 of 47 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
18271 3' -59.8 NC_004681.1 + 14859 1.05 0.001075
Target:  5'- gUCCGCGGCGUCACGGAAACCGGCCUUc -3'
miRNA:   3'- -AGGCGCCGCAGUGCCUUUGGCCGGAA- -5'
18271 3' -59.8 NC_004681.1 + 21349 0.77 0.111653
Target:  5'- --aGCGGCGUCACGGGuccuACCGGCa-- -3'
miRNA:   3'- aggCGCCGCAGUGCCUu---UGGCCGgaa -5'
18271 3' -59.8 NC_004681.1 + 24735 0.76 0.134569
Target:  5'- gUCCGCGGUguuGUCGCGGGAugCaGCCa- -3'
miRNA:   3'- -AGGCGCCG---CAGUGCCUUugGcCGGaa -5'
18271 3' -59.8 NC_004681.1 + 40245 0.75 0.157578
Target:  5'- aUCUGCGGCGUCGCGG---CCuGCCUg -3'
miRNA:   3'- -AGGCGCCGCAGUGCCuuuGGcCGGAa -5'
18271 3' -59.8 NC_004681.1 + 51422 0.74 0.179408
Target:  5'- cUCCGCGGCGacggugaugacgUCgGCGGAcucACCGGCCa- -3'
miRNA:   3'- -AGGCGCCGC------------AG-UGCCUu--UGGCCGGaa -5'
18271 3' -59.8 NC_004681.1 + 2019 0.72 0.255214
Target:  5'- gCCGCGGCcaggugGUCGUGGAGGgCGGCCg- -3'
miRNA:   3'- aGGCGCCG------CAGUGCCUUUgGCCGGaa -5'
18271 3' -59.8 NC_004681.1 + 12951 0.72 0.26153
Target:  5'- --aGCGGCaacGUCACGcuGACCGGCCUg -3'
miRNA:   3'- aggCGCCG---CAGUGCcuUUGGCCGGAa -5'
18271 3' -59.8 NC_004681.1 + 30753 0.71 0.281242
Target:  5'- aCCGCGGCGUcCGCGGGAAUCucGCUc- -3'
miRNA:   3'- aGGCGCCGCA-GUGCCUUUGGc-CGGaa -5'
18271 3' -59.8 NC_004681.1 + 39960 0.71 0.28807
Target:  5'- aUCCGCGcGCGUCGgcgcCGGGucaacucaccGGCuCGGCCUUg -3'
miRNA:   3'- -AGGCGC-CGCAGU----GCCU----------UUG-GCCGGAA- -5'
18271 3' -59.8 NC_004681.1 + 20112 0.71 0.297847
Target:  5'- cUCCGCGGU-UCGacagcgccaagugccCGGAcuGACCGGCCUg -3'
miRNA:   3'- -AGGCGCCGcAGU---------------GCCU--UUGGCCGGAa -5'
18271 3' -59.8 NC_004681.1 + 14466 0.71 0.309333
Target:  5'- cUCCGCGGCGaUCAUGcgggcGGAGgUGGCCUc -3'
miRNA:   3'- -AGGCGCCGC-AGUGC-----CUUUgGCCGGAa -5'
18271 3' -59.8 NC_004681.1 + 17666 0.71 0.312257
Target:  5'- gCCGCGGCGUCACugccccaguugaaggGGguGCCgccagggagcguGGCCUg -3'
miRNA:   3'- aGGCGCCGCAGUG---------------CCuuUGG------------CCGGAa -5'
18271 3' -59.8 NC_004681.1 + 39264 0.7 0.316682
Target:  5'- cUCCGCGGCc---CGGAuGCCGGUCUc -3'
miRNA:   3'- -AGGCGCCGcaguGCCUuUGGCCGGAa -5'
18271 3' -59.8 NC_004681.1 + 16313 0.7 0.316682
Target:  5'- cCCGCGGCcggaUCgACGGAAGCCgagcaGGCCa- -3'
miRNA:   3'- aGGCGCCGc---AG-UGCCUUUGG-----CCGGaa -5'
18271 3' -59.8 NC_004681.1 + 40560 0.7 0.347385
Target:  5'- gCCGCGGCGuUCAauGucAUCGGCCg- -3'
miRNA:   3'- aGGCGCCGC-AGUgcCuuUGGCCGGaa -5'
18271 3' -59.8 NC_004681.1 + 39216 0.7 0.347385
Target:  5'- gUCGCGGCgGUCGCGGAAgguguuGCCcgcgcagguGGCCa- -3'
miRNA:   3'- aGGCGCCG-CAGUGCCUU------UGG---------CCGGaa -5'
18271 3' -59.8 NC_004681.1 + 13090 0.7 0.347385
Target:  5'- gUCCGCGGUGcCAgCGGuguAGCCGGUg-- -3'
miRNA:   3'- -AGGCGCCGCaGU-GCCu--UUGGCCGgaa -5'
18271 3' -59.8 NC_004681.1 + 5782 0.69 0.363515
Target:  5'- aCCGCGGCGaugUGGAAgaacGCUGGCCg- -3'
miRNA:   3'- aGGCGCCGCaguGCCUU----UGGCCGGaa -5'
18271 3' -59.8 NC_004681.1 + 42296 0.69 0.371772
Target:  5'- aUCCGCuccaguucGGCGUgACGGAGGuuGGCa-- -3'
miRNA:   3'- -AGGCG--------CCGCAgUGCCUUUggCCGgaa -5'
18271 3' -59.8 NC_004681.1 + 12397 0.69 0.388667
Target:  5'- aCCGCGGCGacgcUCGuCGGuGAGCCGGUg-- -3'
miRNA:   3'- aGGCGCCGC----AGU-GCC-UUUGGCCGgaa -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.