miRNA display CGI


Results 1 - 20 of 21 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
32088 5' -56.8 NC_007016.1 + 120160 0.66 0.811593
Target:  5'- cAACGCCGcuugaauuucgcgGGCGGccgGGCUUGGUGUCAa -3'
miRNA:   3'- -UUGCGGU-------------UCGUCa--UCGAGUCGCGGUg -5'
32088 5' -56.8 NC_007016.1 + 22804 0.66 0.803392
Target:  5'- aGACGCgagcaccgCGAGCGGccGGCaggUGGCGCCGCg -3'
miRNA:   3'- -UUGCG--------GUUCGUCa-UCGa--GUCGCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 20676 0.66 0.803392
Target:  5'- uGCGCCAGGUAcuGcAGCUCGccgugcuCGCCGCg -3'
miRNA:   3'- uUGCGGUUCGU--CaUCGAGUc------GCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 45169 0.66 0.794122
Target:  5'- uAUG-CAGGCGGUAGCaCGGgcaCGCCACa -3'
miRNA:   3'- uUGCgGUUCGUCAUCGaGUC---GCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 122177 0.66 0.784697
Target:  5'- -uCGCguuGGCAGacAGCgcCAGCGCCACa -3'
miRNA:   3'- uuGCGgu-UCGUCa-UCGa-GUCGCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 130405 0.66 0.784697
Target:  5'- cAUGCCGGGCGGcGGCcgcccggcaUCGGgaGCCGCg -3'
miRNA:   3'- uUGCGGUUCGUCaUCG---------AGUCg-CGGUG- -5'
32088 5' -56.8 NC_007016.1 + 22484 0.66 0.784697
Target:  5'- cAC-CCAGGCAGggGGCgccacgcggCGGCGCCGg -3'
miRNA:   3'- uUGcGGUUCGUCa-UCGa--------GUCGCGGUg -5'
32088 5' -56.8 NC_007016.1 + 124369 0.66 0.765417
Target:  5'- aGACGCCGucAGCGuaauGUcaCUCAgGCGCCGCa -3'
miRNA:   3'- -UUGCGGU--UCGU----CAucGAGU-CGCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 117683 0.66 0.765417
Target:  5'- -cCGCCugcgcGCuGUuuAGcCUCGGCGCCGCu -3'
miRNA:   3'- uuGCGGuu---CGuCA--UC-GAGUCGCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 26385 0.66 0.765417
Target:  5'- cACGCCGgccuugccacgcAGcCGGUGGCUCcAGCccccGCCGCc -3'
miRNA:   3'- uUGCGGU------------UC-GUCAUCGAG-UCG----CGGUG- -5'
32088 5' -56.8 NC_007016.1 + 116550 0.67 0.759531
Target:  5'- cGCGCCAGcggcccuucgcguuGCGGgGGUcgucauacggcccaUCGGCGCCACc -3'
miRNA:   3'- uUGCGGUU--------------CGUCaUCG--------------AGUCGCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 130197 0.67 0.715186
Target:  5'- cGGCGCgGGGCGGccgGGggCGGCGgCCGCg -3'
miRNA:   3'- -UUGCGgUUCGUCa--UCgaGUCGC-GGUG- -5'
32088 5' -56.8 NC_007016.1 + 19486 0.67 0.704872
Target:  5'- uAACGUCGAGU----GC-CAGCGCCGCg -3'
miRNA:   3'- -UUGCGGUUCGucauCGaGUCGCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 79894 0.68 0.694493
Target:  5'- gAugGCCccuGGCAGUcgauGCUC-GCGCaCACg -3'
miRNA:   3'- -UugCGGu--UCGUCAu---CGAGuCGCG-GUG- -5'
32088 5' -56.8 NC_007016.1 + 21939 0.69 0.62082
Target:  5'- cGugGCCAAGCAcGgcgAGCgCGGCGCUg- -3'
miRNA:   3'- -UugCGGUUCGU-Ca--UCGaGUCGCGGug -5'
32088 5' -56.8 NC_007016.1 + 129894 0.69 0.62082
Target:  5'- aGGCGCCcggccGGCGGcGGCgCGGgGCCGCg -3'
miRNA:   3'- -UUGCGGu----UCGUCaUCGaGUCgCGGUG- -5'
32088 5' -56.8 NC_007016.1 + 30890 0.69 0.59972
Target:  5'- -gUGCCGGGCGGUGGUgcgCGGC-CCAa -3'
miRNA:   3'- uuGCGGUUCGUCAUCGa--GUCGcGGUg -5'
32088 5' -56.8 NC_007016.1 + 18890 0.69 0.589203
Target:  5'- -cCGCCAGGC---AGCUcCAGCGCgCGCg -3'
miRNA:   3'- uuGCGGUUCGucaUCGA-GUCGCG-GUG- -5'
32088 5' -56.8 NC_007016.1 + 116134 0.7 0.557885
Target:  5'- gGugGCCGGGCAGaGGC-CGGCcgGCCAa -3'
miRNA:   3'- -UugCGGUUCGUCaUCGaGUCG--CGGUg -5'
32088 5' -56.8 NC_007016.1 + 129847 0.71 0.516919
Target:  5'- cGGCGCCAGGCgAGggccccUAGCggCGGCGCCcgGCg -3'
miRNA:   3'- -UUGCGGUUCG-UC------AUCGa-GUCGCGG--UG- -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.