miRNA display CGI


Results 1 - 14 of 14 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
12256 3' -57.2 NC_003309.1 + 53125 0.68 0.451944
Target:  5'- -gGGCUGAcagaGGCCGcugucgCGGCGCaagaUGCGCu -3'
miRNA:   3'- aaCCGACU----UCGGUa-----GCCGCGa---GUGCG- -5'
12256 3' -57.2 NC_003309.1 + 48134 0.68 0.432344
Target:  5'- --aGCUcGAA-CCAUCGcgaGCGCUCGCGCu -3'
miRNA:   3'- aacCGA-CUUcGGUAGC---CGCGAGUGCG- -5'
12256 3' -57.2 NC_003309.1 + 47981 0.69 0.36787
Target:  5'- -cGGUUGAuuGCCcgugCGGCGCgccagcUCGCGCu -3'
miRNA:   3'- aaCCGACUu-CGGua--GCCGCG------AGUGCG- -5'
12256 3' -57.2 NC_003309.1 + 46506 0.7 0.341504
Target:  5'- -aGGaucaccuuGGCCGUCGGCgggaacuGCUCGCGCa -3'
miRNA:   3'- aaCCgacu----UCGGUAGCCG-------CGAGUGCG- -5'
12256 3' -57.2 NC_003309.1 + 44872 0.68 0.461923
Target:  5'- -cGGCUGAcucagguucGCCggCGGCGaucCGCGCa -3'
miRNA:   3'- aaCCGACUu--------CGGuaGCCGCga-GUGCG- -5'
12256 3' -57.2 NC_003309.1 + 43536 0.66 0.534722
Target:  5'- --cGCgcacGCCGUCGGCGgccaUCGCGCg -3'
miRNA:   3'- aacCGacuuCGGUAGCCGCg---AGUGCG- -5'
12256 3' -57.2 NC_003309.1 + 37249 0.69 0.359214
Target:  5'- -cGGCaGggGCaaggCGGCGCUacagcaGCGCg -3'
miRNA:   3'- aaCCGaCuuCGgua-GCCGCGAg-----UGCG- -5'
12256 3' -57.2 NC_003309.1 + 33647 0.69 0.403901
Target:  5'- cUGGCUGAGGCCGgcaUCGaGCcCUCAgucgGCa -3'
miRNA:   3'- aACCGACUUCGGU---AGC-CGcGAGUg---CG- -5'
12256 3' -57.2 NC_003309.1 + 27528 0.66 0.524045
Target:  5'- gUGGgaUGGAGCUAUUcGCGCUCgaccaguuaaaGCGCa -3'
miRNA:   3'- aACCg-ACUUCGGUAGcCGCGAG-----------UGCG- -5'
12256 3' -57.2 NC_003309.1 + 26503 0.67 0.502945
Target:  5'- cUGGCUGcuGCacgcagaGGCuugGCUCGCGCg -3'
miRNA:   3'- aACCGACuuCGguag---CCG---CGAGUGCG- -5'
12256 3' -57.2 NC_003309.1 + 25381 0.68 0.413251
Target:  5'- --uGCgUGuAGCCGUCGGCGUcggUCugGCc -3'
miRNA:   3'- aacCG-ACuUCGGUAGCCGCG---AGugCG- -5'
12256 3' -57.2 NC_003309.1 + 24434 0.66 0.545474
Target:  5'- -cGGCgGA---UAUCGGCGCUCAUGa -3'
miRNA:   3'- aaCCGaCUucgGUAGCCGCGAGUGCg -5'
12256 3' -57.2 NC_003309.1 + 23721 0.67 0.486335
Target:  5'- cUGGCUGcgccgcaucgucccaAcugaaaaugaucAGCUcgCGGCGCUCgACGCc -3'
miRNA:   3'- aACCGAC---------------U------------UCGGuaGCCGCGAG-UGCG- -5'
12256 3' -57.2 NC_003309.1 + 12660 0.66 0.578113
Target:  5'- -cGGcCUGcaaugcGAGCCGcugcUCGagauagccGCGCUCGCGCg -3'
miRNA:   3'- aaCC-GAC------UUCGGU----AGC--------CGCGAGUGCG- -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.