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
11520 3' -63.3 NC_003085.1 + 5574 0.66 0.351282
Target:  5'- aACGGUGCGCCaCGUCuacgccCUGgUGCGGa -3'
miRNA:   3'- cUGCCGCGCGG-GCGGca----GACaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 12674 0.66 0.351282
Target:  5'- -cCGGgGCGCCaCGCgCGUCaGUCggaccacgagcaGCGGu -3'
miRNA:   3'- cuGCCgCGCGG-GCG-GCAGaCAG------------CGCC- -5'
11520 3' -63.3 NC_003085.1 + 39727 0.66 0.351282
Target:  5'- cACGcGCGCGCCgcuCGgUGUC-GUCGCGa -3'
miRNA:   3'- cUGC-CGCGCGG---GCgGCAGaCAGCGCc -5'
11520 3' -63.3 NC_003085.1 + 42629 0.66 0.343412
Target:  5'- cGCGGCGUuCCCcUCGUC-GUCGCGc -3'
miRNA:   3'- cUGCCGCGcGGGcGGCAGaCAGCGCc -5'
11520 3' -63.3 NC_003085.1 + 33014 0.66 0.343412
Target:  5'- uGGCaGGCGCGCCUGuuGagccgGUCGCc- -3'
miRNA:   3'- -CUG-CCGCGCGGGCggCaga--CAGCGcc -5'
11520 3' -63.3 NC_003085.1 + 25258 0.66 0.328054
Target:  5'- cGCGGCGgGCgUCGUCGUCgg-CGCGc -3'
miRNA:   3'- cUGCCGCgCG-GGCGGCAGacaGCGCc -5'
11520 3' -63.3 NC_003085.1 + 13791 0.66 0.320568
Target:  5'- aGGCGaGCGUGa-CGCCaGUCUG-CGUGGa -3'
miRNA:   3'- -CUGC-CGCGCggGCGG-CAGACaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 621 0.66 0.320568
Target:  5'- --gGGCGCGCUCGagG-CUGgCGCGGa -3'
miRNA:   3'- cugCCGCGCGGGCggCaGACaGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 7492 0.66 0.320568
Target:  5'- uGACGG-GCGUCCG-CGUCgagcgGUUGCaGGa -3'
miRNA:   3'- -CUGCCgCGCGGGCgGCAGa----CAGCG-CC- -5'
11520 3' -63.3 NC_003085.1 + 29270 0.66 0.313211
Target:  5'- aGGCGcGUGCGCuCCG-CGUCc-UCGCGGc -3'
miRNA:   3'- -CUGC-CGCGCG-GGCgGCAGacAGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 32298 0.66 0.313211
Target:  5'- cGCGGCGC-CCCGUgcUCUGg-GCGGu -3'
miRNA:   3'- cUGCCGCGcGGGCGgcAGACagCGCC- -5'
11520 3' -63.3 NC_003085.1 + 16541 0.66 0.313211
Target:  5'- aGGCGGCGCGCaggucggacaCUGCCGUCgccucgaaUGaCGuCGGc -3'
miRNA:   3'- -CUGCCGCGCG----------GGCGGCAG--------ACaGC-GCC- -5'
11520 3' -63.3 NC_003085.1 + 13931 0.66 0.310304
Target:  5'- gGACGGgGCGCgCGCCGaagaagaaGCGGa -3'
miRNA:   3'- -CUGCCgCGCGgGCGGCagacag--CGCC- -5'
11520 3' -63.3 NC_003085.1 + 48456 0.66 0.305982
Target:  5'- uGCGGCGCuGCUCGCCGcgcUCaGgagCGCGc -3'
miRNA:   3'- cUGCCGCG-CGGGCGGC---AGaCa--GCGCc -5'
11520 3' -63.3 NC_003085.1 + 40985 0.66 0.305266
Target:  5'- cGCGGCGaGCUCGUCacggcagGUCUugagGUCGCGGc -3'
miRNA:   3'- cUGCCGCgCGGGCGG-------CAGA----CAGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 20466 0.67 0.29191
Target:  5'- --gGGCGUGUCCGCgaaGUCUGUgggcUGCGa -3'
miRNA:   3'- cugCCGCGCGGGCGg--CAGACA----GCGCc -5'
11520 3' -63.3 NC_003085.1 + 19909 0.67 0.29191
Target:  5'- cGACaGCG-GUUCGCCG-UUGUUGCGGu -3'
miRNA:   3'- -CUGcCGCgCGGGCGGCaGACAGCGCC- -5'
11520 3' -63.3 NC_003085.1 + 2153 0.67 0.285066
Target:  5'- cGGCGGCuGCGCUCGUcgCGUCaccGUC-CGGg -3'
miRNA:   3'- -CUGCCG-CGCGGGCG--GCAGa--CAGcGCC- -5'
11520 3' -63.3 NC_003085.1 + 27675 0.67 0.285066
Target:  5'- uACGGCgGCGaCgUGCUGgugCUGUCGCGu -3'
miRNA:   3'- cUGCCG-CGC-GgGCGGCa--GACAGCGCc -5'
11520 3' -63.3 NC_003085.1 + 46890 0.67 0.282364
Target:  5'- cGGCGGCGaggugaugcCGCCCaaggacguggccaCCGUCaucGUCGCGGa -3'
miRNA:   3'- -CUGCCGC---------GCGGGc------------GGCAGa--CAGCGCC- -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.