miRNA display CGI


Results 1 - 20 of 26 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
2790 3' -54.3 NC_001491.2 + 141436 0.79 0.338228
Target:  5'- cCCUGCGCagGGCGCuGCUGGauuUUUACGCc -3'
miRNA:   3'- aGGAUGCGg-CUGCG-CGACC---AAAUGCG- -5'
2790 3' -54.3 NC_001491.2 + 114948 0.78 0.377961
Target:  5'- gCCUGCGCCG-UGCGCUGGccccgggaGCGCc -3'
miRNA:   3'- aGGAUGCGGCuGCGCGACCaaa-----UGCG- -5'
2790 3' -54.3 NC_001491.2 + 40355 0.77 0.438611
Target:  5'- cUUCUAuuuCGCCGACGCGCUG--UUugGCa -3'
miRNA:   3'- -AGGAU---GCGGCUGCGCGACcaAAugCG- -5'
2790 3' -54.3 NC_001491.2 + 114567 0.72 0.686872
Target:  5'- gCCUGCgGCCGGCgcgGCGCUGGggc-CGUg -3'
miRNA:   3'- aGGAUG-CGGCUG---CGCGACCaaauGCG- -5'
2790 3' -54.3 NC_001491.2 + 15789 0.72 0.736919
Target:  5'- uUCCU-CGCCGGCGgGC-GGUgcaaaguccGCGCg -3'
miRNA:   3'- -AGGAuGCGGCUGCgCGaCCAaa-------UGCG- -5'
2790 3' -54.3 NC_001491.2 + 121545 0.71 0.765918
Target:  5'- ---gGCGUCGAUGCGCUGGcuggaGCGUg -3'
miRNA:   3'- aggaUGCGGCUGCGCGACCaaa--UGCG- -5'
2790 3' -54.3 NC_001491.2 + 119628 0.69 0.861203
Target:  5'- cCCgUugGCgCGACGCGCUucccGGggaggagACGCa -3'
miRNA:   3'- aGG-AugCG-GCUGCGCGA----CCaaa----UGCG- -5'
2790 3' -54.3 NC_001491.2 + 18597 0.69 0.868758
Target:  5'- cUCUGCGCCGcuggacuCGCGgaGGUa-GCGCc -3'
miRNA:   3'- aGGAUGCGGCu------GCGCgaCCAaaUGCG- -5'
2790 3' -54.3 NC_001491.2 + 115079 0.68 0.883219
Target:  5'- gCCUGCGCCugggcuccgccaGGCGCaagcucCUGGUgcuggACGCg -3'
miRNA:   3'- aGGAUGCGG------------CUGCGc-----GACCAaa---UGCG- -5'
2790 3' -54.3 NC_001491.2 + 123524 0.68 0.896782
Target:  5'- gCUUGCgGCCGcggGCGCGCaGGU--ACGCc -3'
miRNA:   3'- aGGAUG-CGGC---UGCGCGaCCAaaUGCG- -5'
2790 3' -54.3 NC_001491.2 + 133382 0.68 0.909415
Target:  5'- aUCUGCgGuuGGCGCG-UGGUcaaguuUUACGCg -3'
miRNA:   3'- aGGAUG-CggCUGCGCgACCA------AAUGCG- -5'
2790 3' -54.3 NC_001491.2 + 81536 0.67 0.921097
Target:  5'- aUCUAuCGCCGuaagaguUGCGCUGGg--AUGCc -3'
miRNA:   3'- aGGAU-GCGGCu------GCGCGACCaaaUGCG- -5'
2790 3' -54.3 NC_001491.2 + 148599 0.67 0.926039
Target:  5'- gUCCccaucggUugGCCG-CGCGgUGGcucUGCGCg -3'
miRNA:   3'- -AGG-------AugCGGCuGCGCgACCaa-AUGCG- -5'
2790 3' -54.3 NC_001491.2 + 119514 0.67 0.926576
Target:  5'- aUCCcgUugGCgCGACGCGCuucccUGGgaggagacaUACGCa -3'
miRNA:   3'- -AGG--AugCG-GCUGCGCG-----ACCaa-------AUGCG- -5'
2790 3' -54.3 NC_001491.2 + 57386 0.66 0.945647
Target:  5'- -aCUACGCUGgugggggcugagcAgGgGCUGGcUUGCGCg -3'
miRNA:   3'- agGAUGCGGC-------------UgCgCGACCaAAUGCG- -5'
2790 3' -54.3 NC_001491.2 + 116599 0.66 0.946088
Target:  5'- cUCCUGCGCCucCGCGgC-GGg--GCGUc -3'
miRNA:   3'- -AGGAUGCGGcuGCGC-GaCCaaaUGCG- -5'
2790 3' -54.3 NC_001491.2 + 50652 0.66 0.946088
Target:  5'- gUCCUuaauaaACGCCGcgcACGCGgUcGGUUUGgGUg -3'
miRNA:   3'- -AGGA------UGCGGC---UGCGCgA-CCAAAUgCG- -5'
2790 3' -54.3 NC_001491.2 + 46243 0.66 0.946088
Target:  5'- uUCUUGagGCgGugGCGuCUGGUUUGC-Cg -3'
miRNA:   3'- -AGGAUg-CGgCugCGC-GACCAAAUGcG- -5'
2790 3' -54.3 NC_001491.2 + 35064 0.66 0.946088
Target:  5'- aCCUGUGUCGAUGuCGUaucucuaucUGGUaUACGCa -3'
miRNA:   3'- aGGAUGCGGCUGC-GCG---------ACCAaAUGCG- -5'
2790 3' -54.3 NC_001491.2 + 120167 0.66 0.950371
Target:  5'- -gUUACGUCGAUGgGgUGGggccgGCGCg -3'
miRNA:   3'- agGAUGCGGCUGCgCgACCaaa--UGCG- -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.