miRNA display CGI


Results 1 - 20 of 49 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
23096 3' -59.5 NC_005178.1 + 30631 0.66 0.411072
Target:  5'- cCGCCACCGAUUuCGGcagcaccagcGCCUGGGUc- -3'
miRNA:   3'- -GCGGUGGCUGGcGCUu---------UGGACCCGag -5'
23096 3' -59.5 NC_005178.1 + 31589 0.66 0.411072
Target:  5'- cCGCCGCCGGCCu--GGACCUGGuccGCc- -3'
miRNA:   3'- -GCGGUGGCUGGcgcUUUGGACC---CGag -5'
23096 3' -59.5 NC_005178.1 + 1373 0.66 0.410141
Target:  5'- aGCCACUGGCCcCGAacucauacgucuuGACCUGGccaGCa- -3'
miRNA:   3'- gCGGUGGCUGGcGCU-------------UUGGACC---CGag -5'
23096 3' -59.5 NC_005178.1 + 22254 0.66 0.40274
Target:  5'- cCGCCaaGCCGACCGCcAGGCUggcccgccaggcggcGGGCg- -3'
miRNA:   3'- -GCGG--UGGCUGGCGcUUUGGa--------------CCCGag -5'
23096 3' -59.5 NC_005178.1 + 27904 0.66 0.40182
Target:  5'- aGCCACCGGCCGCGcAGAUCa------ -3'
miRNA:   3'- gCGGUGGCUGGCGC-UUUGGacccgag -5'
23096 3' -59.5 NC_005178.1 + 5448 0.66 0.40182
Target:  5'- gGCCcgGCCGACCauucGCGAAAC--GGGCa- -3'
miRNA:   3'- gCGG--UGGCUGG----CGCUUUGgaCCCGag -5'
23096 3' -59.5 NC_005178.1 + 35992 0.66 0.40182
Target:  5'- aCGCUGCCGACUuccgGCcAGGCCgaGGGCg- -3'
miRNA:   3'- -GCGGUGGCUGG----CGcUUUGGa-CCCGag -5'
23096 3' -59.5 NC_005178.1 + 27445 0.66 0.392702
Target:  5'- aGCCACuCGAcCCGCucGACCUGGa--- -3'
miRNA:   3'- gCGGUG-GCU-GGCGcuUUGGACCcgag -5'
23096 3' -59.5 NC_005178.1 + 32219 0.66 0.374873
Target:  5'- gGCCAUCGacGCCGC----CCUGGGC-Cg -3'
miRNA:   3'- gCGGUGGC--UGGCGcuuuGGACCCGaG- -5'
23096 3' -59.5 NC_005178.1 + 26660 0.66 0.374873
Target:  5'- aGCCA--GAUCGuCGAGaACCUGGGCa- -3'
miRNA:   3'- gCGGUggCUGGC-GCUU-UGGACCCGag -5'
23096 3' -59.5 NC_005178.1 + 20034 0.66 0.374873
Target:  5'- cCGCUGCCGGCCGUuu--CCUGGaCUUc -3'
miRNA:   3'- -GCGGUGGCUGGCGcuuuGGACCcGAG- -5'
23096 3' -59.5 NC_005178.1 + 16656 0.67 0.357601
Target:  5'- cCGCUGCCaGCCaaugGCGAGGcgguCCUGGGCg- -3'
miRNA:   3'- -GCGGUGGcUGG----CGCUUU----GGACCCGag -5'
23096 3' -59.5 NC_005178.1 + 26220 0.67 0.352529
Target:  5'- aGCagGCCGACCGCuggcuccaguugguaGAGcccggccaccACCUGGGCg- -3'
miRNA:   3'- gCGg-UGGCUGGCG---------------CUU----------UGGACCCGag -5'
23096 3' -59.5 NC_005178.1 + 19485 0.67 0.349176
Target:  5'- uCGCCAgCUGcUCGCGAgcGACC-GGGCUg -3'
miRNA:   3'- -GCGGU-GGCuGGCGCU--UUGGaCCCGAg -5'
23096 3' -59.5 NC_005178.1 + 14668 0.67 0.340894
Target:  5'- cCGCguCCGcauCgGCGAuAGCCUGGGC-Ca -3'
miRNA:   3'- -GCGguGGCu--GgCGCU-UUGGACCCGaG- -5'
23096 3' -59.5 NC_005178.1 + 36578 0.67 0.338437
Target:  5'- cCGCCcuggugacagcaggGCCGAaCGCGAcAACggguuccuCUGGGCUCg -3'
miRNA:   3'- -GCGG--------------UGGCUgGCGCU-UUG--------GACCCGAG- -5'
23096 3' -59.5 NC_005178.1 + 3965 0.67 0.332755
Target:  5'- gCGUCGCCGGUCGCGAccAGCaCgucGGCUCg -3'
miRNA:   3'- -GCGGUGGCUGGCGCU--UUG-Gac-CCGAG- -5'
23096 3' -59.5 NC_005178.1 + 25773 0.67 0.332755
Target:  5'- uGCagGCCGGCCugcgGCGGAACCcccauGGCUCg -3'
miRNA:   3'- gCGg-UGGCUGG----CGCUUUGGac---CCGAG- -5'
23096 3' -59.5 NC_005178.1 + 26818 0.67 0.331949
Target:  5'- aCGCgCugUGGCCaGCGggGCUgucuucggcccguUGGGCUg -3'
miRNA:   3'- -GCG-GugGCUGG-CGCuuUGG-------------ACCCGAg -5'
23096 3' -59.5 NC_005178.1 + 16328 0.67 0.324759
Target:  5'- uGCgGCCGGCCGgGGAGC--GGGUUUc -3'
miRNA:   3'- gCGgUGGCUGGCgCUUUGgaCCCGAG- -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.