miRNA display CGI


Results 1 - 20 of 50 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
12820 3' -62.4 NC_003387.1 + 817 0.66 0.340637
Target:  5'- -uGCGCgaaGCGCGACGaCGGCCu--- -3'
miRNA:   3'- cuCGCGug-CGCGCUGCaGCCGGccua -5'
12820 3' -62.4 NC_003387.1 + 1294 0.66 0.348597
Target:  5'- -uGCGCcucgacgcccugGCGgGCGACGUCGacgacGUCGGGUa -3'
miRNA:   3'- cuCGCG------------UGCgCGCUGCAGC-----CGGCCUA- -5'
12820 3' -62.4 NC_003387.1 + 1941 0.66 0.364086
Target:  5'- cAGCGCAUGauccggcCGCGG-GUCuGGCCGGGc -3'
miRNA:   3'- cUCGCGUGC-------GCGCUgCAG-CCGGCCUa -5'
12820 3' -62.4 NC_003387.1 + 3627 0.66 0.347795
Target:  5'- uGAGCGgGCGUGCGGguaucgcCGUCGaCCGGc- -3'
miRNA:   3'- -CUCGCgUGCGCGCU-------GCAGCcGGCCua -5'
12820 3' -62.4 NC_003387.1 + 4978 0.66 0.31755
Target:  5'- -cGUGCuCGCGCaGAgGUCGGUCGcGAUu -3'
miRNA:   3'- cuCGCGuGCGCG-CUgCAGCCGGC-CUA- -5'
12820 3' -62.4 NC_003387.1 + 6497 0.69 0.203654
Target:  5'- cGGGC-CGCGaaggcaGUuGCGUCGGCCGGGUg -3'
miRNA:   3'- -CUCGcGUGCg-----CGcUGCAGCCGGCCUA- -5'
12820 3' -62.4 NC_003387.1 + 7982 0.66 0.31755
Target:  5'- cGGGUGCuGCGCuuCGGCGcccCGGCCGGGc -3'
miRNA:   3'- -CUCGCG-UGCGc-GCUGCa--GCCGGCCUa -5'
12820 3' -62.4 NC_003387.1 + 8284 0.69 0.219822
Target:  5'- cAGCGCcuCGUGCG-CGUCGGCgGGc- -3'
miRNA:   3'- cUCGCGu-GCGCGCuGCAGCCGgCCua -5'
12820 3' -62.4 NC_003387.1 + 9729 0.66 0.364914
Target:  5'- -cGCGUACGgGuCGGCGUCaaGGUCGGc- -3'
miRNA:   3'- cuCGCGUGCgC-GCUGCAG--CCGGCCua -5'
12820 3' -62.4 NC_003387.1 + 10041 0.77 0.05888
Target:  5'- aAGCGCGCcgaggGCGCGGUGUCGGCCGGu- -3'
miRNA:   3'- cUCGCGUG-----CGCGCUGCAGCCGGCCua -5'
12820 3' -62.4 NC_003387.1 + 11347 0.67 0.310121
Target:  5'- cGGCGCucggccucACGCuCGGCGUCGGCCu--- -3'
miRNA:   3'- cUCGCG--------UGCGcGCUGCAGCCGGccua -5'
12820 3' -62.4 NC_003387.1 + 12273 0.66 0.332808
Target:  5'- -cGCGCcUG-GCGACcggCGGCCGGAUc -3'
miRNA:   3'- cuCGCGuGCgCGCUGca-GCCGGCCUA- -5'
12820 3' -62.4 NC_003387.1 + 14519 0.68 0.268327
Target:  5'- -uGCGCcuGCGUGCGGuacuCGgCGGCCGGGc -3'
miRNA:   3'- cuCGCG--UGCGCGCU----GCaGCCGGCCUa -5'
12820 3' -62.4 NC_003387.1 + 15988 0.7 0.188527
Target:  5'- aGGCGCuCGCaGaCGGCGUCgaGGCCGGGc -3'
miRNA:   3'- cUCGCGuGCG-C-GCUGCAG--CCGGCCUa -5'
12820 3' -62.4 NC_003387.1 + 17518 0.68 0.249193
Target:  5'- cGGCcaGCAUGCGCaGCGgcUCGGCCGGu- -3'
miRNA:   3'- cUCG--CGUGCGCGcUGC--AGCCGGCCua -5'
12820 3' -62.4 NC_003387.1 + 17779 0.69 0.208925
Target:  5'- cGAGCuuGCGCaGCGGCa-CGGCCGGGa -3'
miRNA:   3'- -CUCGcgUGCG-CGCUGcaGCCGGCCUa -5'
12820 3' -62.4 NC_003387.1 + 18602 0.7 0.193456
Target:  5'- -cGCGCAC-CGCGACGUCGacGCCGccGAUc -3'
miRNA:   3'- cuCGCGUGcGCGCUGCAGC--CGGC--CUA- -5'
12820 3' -62.4 NC_003387.1 + 19331 0.66 0.364914
Target:  5'- cAGCGaCGaGCGCGGCGagaaccUGGCCGGGc -3'
miRNA:   3'- cUCGC-GUgCGCGCUGCa-----GCCGGCCUa -5'
12820 3' -62.4 NC_003387.1 + 20217 0.68 0.249193
Target:  5'- -cGUGCACGCaGCGGCaGUCGucgcaccacggcGCCGGGg -3'
miRNA:   3'- cuCGCGUGCG-CGCUG-CAGC------------CGGCCUa -5'
12820 3' -62.4 NC_003387.1 + 20511 0.68 0.268327
Target:  5'- -cGCGCA-GCGCGGCGUCGcgcucGUCGGu- -3'
miRNA:   3'- cuCGCGUgCGCGCUGCAGC-----CGGCCua -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.