miRNA display CGI


Results 1 - 20 of 41 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
12153 3' -58.8 NC_003309.1 + 53066 0.79 0.070363
Target:  5'- uUCCGUAUCcUCGCGcaugacgauuGCCgCGCACCGCg -3'
miRNA:   3'- uAGGCGUAGaAGCGU----------CGG-GCGUGGCG- -5'
12153 3' -58.8 NC_003309.1 + 49168 0.7 0.280853
Target:  5'- cUCC-CAUCUuUCG-AGCCCGUACCGg -3'
miRNA:   3'- uAGGcGUAGA-AGCgUCGGGCGUGGCg -5'
12153 3' -58.8 NC_003309.1 + 48489 0.68 0.383841
Target:  5'- uAUCCG-AUCUgcucaaUCGuCAGCCCGCGgcggccggccuuCCGCu -3'
miRNA:   3'- -UAGGCgUAGA------AGC-GUCGGGCGU------------GGCG- -5'
12153 3' -58.8 NC_003309.1 + 47442 0.69 0.325444
Target:  5'- cUCCGCcgCUUucgccucgCGguGCUCGCACCa- -3'
miRNA:   3'- uAGGCGuaGAA--------GCguCGGGCGUGGcg -5'
12153 3' -58.8 NC_003309.1 + 47002 0.68 0.375085
Target:  5'- --gCGCGUCUUCGCAGCCaacuuGUcgaCGCu -3'
miRNA:   3'- uagGCGUAGAAGCGUCGGg----CGug-GCG- -5'
12153 3' -58.8 NC_003309.1 + 46763 0.68 0.392732
Target:  5'- -aCCGCAacgggcgucaCUUCGcCAGCgCGCGCCGg -3'
miRNA:   3'- uaGGCGUa---------GAAGC-GUCGgGCGUGGCg -5'
12153 3' -58.8 NC_003309.1 + 46421 0.71 0.26044
Target:  5'- uUCCGCGUCgucaaUaccgagcacccaUCGCAGCCCGCcaAgCGCu -3'
miRNA:   3'- uAGGCGUAG-----A------------AGCGUCGGGCG--UgGCG- -5'
12153 3' -58.8 NC_003309.1 + 45828 0.67 0.448783
Target:  5'- cUCCGgGUCUUUGUAGaagaGCACCGg -3'
miRNA:   3'- uAGGCgUAGAAGCGUCggg-CGUGGCg -5'
12153 3' -58.8 NC_003309.1 + 44281 0.68 0.383841
Target:  5'- uUCUGCcgCUUUGCA-CgaGCGCCGCg -3'
miRNA:   3'- uAGGCGuaGAAGCGUcGggCGUGGCG- -5'
12153 3' -58.8 NC_003309.1 + 43511 0.67 0.448783
Target:  5'- --gCGCAUCaggUCGCGGCagucuCCGCGgUGCg -3'
miRNA:   3'- uagGCGUAGa--AGCGUCG-----GGCGUgGCG- -5'
12153 3' -58.8 NC_003309.1 + 42243 0.66 0.508981
Target:  5'- -gCCGCGggcauggcaguuUCUUCGacguagaGGUUCGCGCCGUc -3'
miRNA:   3'- uaGGCGU------------AGAAGCg------UCGGGCGUGGCG- -5'
12153 3' -58.8 NC_003309.1 + 39265 0.7 0.295155
Target:  5'- -gUUGCGUCgccagcgCGCAGCCCGCggaucagcAUCGCg -3'
miRNA:   3'- uaGGCGUAGaa-----GCGUCGGGCG--------UGGCG- -5'
12153 3' -58.8 NC_003309.1 + 37409 0.66 0.478417
Target:  5'- -aCCGCAUCggCGUgAGCUaCGCGaucCCGCg -3'
miRNA:   3'- uaGGCGUAGaaGCG-UCGG-GCGU---GGCG- -5'
12153 3' -58.8 NC_003309.1 + 35685 0.71 0.241253
Target:  5'- gGUCUGCG-CgaaaaGCuGCUCGCACCGCg -3'
miRNA:   3'- -UAGGCGUaGaag--CGuCGGGCGUGGCG- -5'
12153 3' -58.8 NC_003309.1 + 34670 0.69 0.325444
Target:  5'- uGUCCGCGUCgcUGCuGUCUGaACCGCc -3'
miRNA:   3'- -UAGGCGUAGaaGCGuCGGGCgUGGCG- -5'
12153 3' -58.8 NC_003309.1 + 32992 1.1 0.000335
Target:  5'- cAUCCGCAUCUUCGCAGCCCGCACCGCg -3'
miRNA:   3'- -UAGGCGUAGAAGCGUCGGGCGUGGCG- -5'
12153 3' -58.8 NC_003309.1 + 31945 0.69 0.325444
Target:  5'- --gCGCAcgaacaguUCUUCGCcGCCCGCgGCCGg -3'
miRNA:   3'- uagGCGU--------AGAAGCGuCGGGCG-UGGCg -5'
12153 3' -58.8 NC_003309.1 + 31656 0.66 0.498697
Target:  5'- uUCCGaagCUgcUCGCAguGCCCGC-UCGCg -3'
miRNA:   3'- uAGGCguaGA--AGCGU--CGGGCGuGGCG- -5'
12153 3' -58.8 NC_003309.1 + 28964 0.69 0.310018
Target:  5'- ---gGCAUCUugaUCGCgaggaAGCCCGCcACCGUg -3'
miRNA:   3'- uaggCGUAGA---AGCG-----UCGGGCG-UGGCG- -5'
12153 3' -58.8 NC_003309.1 + 24013 0.66 0.513119
Target:  5'- -cCCGuCGUCgacgcagcUGCAGCCaucacacgagcggaaCGCGCCGCg -3'
miRNA:   3'- uaGGC-GUAGaa------GCGUCGG---------------GCGUGGCG- -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.