miRNA display CGI


Results 1 - 12 of 12 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
12226 3' -54.4 NC_003309.1 + 10686 0.78 0.184007
Target:  5'- uGCuGCGCGGCGGccgucuCGCGGGCGAUg -3'
miRNA:   3'- -CGcUGCGCUGCUaaau--GCGCCCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 43558 0.76 0.272379
Target:  5'- gGCGACGUGACGAUcgucugcACGCGcacgccgucGGCGGCc -3'
miRNA:   3'- -CGCUGCGCUGCUAaa-----UGCGC---------CCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 22473 0.75 0.279344
Target:  5'- cCGACGCGGCGGcaucgUGCGC-GGCGAUc -3'
miRNA:   3'- cGCUGCGCUGCUaa---AUGCGcCCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 11507 0.73 0.374024
Target:  5'- uGCGACGCGAggcucgccguguCGAUc-GCGCcGGCGGCu -3'
miRNA:   3'- -CGCUGCGCU------------GCUAaaUGCGcCCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 44162 0.7 0.568346
Target:  5'- gGCGuACGCGACGAguccgcuuuuCGUGcGGUGAUg -3'
miRNA:   3'- -CGC-UGCGCUGCUaaau------GCGC-CCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 40171 0.68 0.638206
Target:  5'- aGCGcaaACGCGAgccgUGAg--ACGUGGGCGGu -3'
miRNA:   3'- -CGC---UGCGCU----GCUaaaUGCGCCCGCUg -5'
12226 3' -54.4 NC_003309.1 + 47340 0.68 0.649164
Target:  5'- cGCGGCGC-ACGcc--GCGCGGGuUGAUg -3'
miRNA:   3'- -CGCUGCGcUGCuaaaUGCGCCC-GCUG- -5'
12226 3' -54.4 NC_003309.1 + 6086 0.68 0.649164
Target:  5'- uCGACuCGACGug--ACGCGGGCcGAa -3'
miRNA:   3'- cGCUGcGCUGCuaaaUGCGCCCG-CUg -5'
12226 3' -54.4 NC_003309.1 + 13805 0.67 0.715285
Target:  5'- uGCGACGCGGuuGUUgucgccgccgcuucCGcCGGGCGGCu -3'
miRNA:   3'- -CGCUGCGCUgcUAAau------------GC-GCCCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 34545 0.67 0.722727
Target:  5'- cGCGAgcaGCGuaGCGAgcacccgucgAUGUGGGCGGCc -3'
miRNA:   3'- -CGCUg--CGC--UGCUaaa-------UGCGCCCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 45880 0.67 0.745811
Target:  5'- cGCG-CGCGuuGAUc-ACGCG-GCGACg -3'
miRNA:   3'- -CGCuGCGCugCUAaaUGCGCcCGCUG- -5'
12226 3' -54.4 NC_003309.1 + 12592 0.66 0.776374
Target:  5'- uUGAUGCGcucgaucucgGCGAUgUACuCGGGCGAg -3'
miRNA:   3'- cGCUGCGC----------UGCUAaAUGcGCCCGCUg -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.