miRNA display CGI


Results 1 - 20 of 72 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
13005 3' -56.8 NC_003387.1 + 20897 0.66 0.68379
Target:  5'- gCGGCGUcauuggagGAUGCGAUCGGcggcgacCCGuUCGUc -3'
miRNA:   3'- -GUCGCG--------CUGCGCUAGCCaa-----GGC-AGCG- -5'
13005 3' -56.8 NC_003387.1 + 11395 0.66 0.68379
Target:  5'- uCGGCGCcacgcuGGcCGCGAUCGGccccgaggugCUGUCGUc -3'
miRNA:   3'- -GUCGCG------CU-GCGCUAGCCaa--------GGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 38038 0.66 0.68379
Target:  5'- gCGGCGaCGGCGCcccGAUCGGg-CgGUgGCu -3'
miRNA:   3'- -GUCGC-GCUGCG---CUAGCCaaGgCAgCG- -5'
13005 3' -56.8 NC_003387.1 + 51851 0.66 0.68379
Target:  5'- cCGGCGuCGcugcCGCGGUggcccCGGUgaucgcgaaggCCGUCGCg -3'
miRNA:   3'- -GUCGC-GCu---GCGCUA-----GCCAa----------GGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 41337 0.66 0.683789
Target:  5'- cCAGCGUGGCGcCGAUCGccgcaaacgacGacccggCCGUCuGCa -3'
miRNA:   3'- -GUCGCGCUGC-GCUAGC-----------Caa----GGCAG-CG- -5'
13005 3' -56.8 NC_003387.1 + 15828 0.66 0.683789
Target:  5'- cCGGuUGUGACGcCGAcgCGGUgcCCGUCGg -3'
miRNA:   3'- -GUC-GCGCUGC-GCUa-GCCAa-GGCAGCg -5'
13005 3' -56.8 NC_003387.1 + 29669 0.66 0.683789
Target:  5'- aCGGCGUaguGCGUGAUCGGcacgCCGcCGg -3'
miRNA:   3'- -GUCGCGc--UGCGCUAGCCaa--GGCaGCg -5'
13005 3' -56.8 NC_003387.1 + 4566 0.66 0.683789
Target:  5'- -uGCGCGaccGCGCGGgccUCGGUggCG-CGCu -3'
miRNA:   3'- guCGCGC---UGCGCU---AGCCAagGCaGCG- -5'
13005 3' -56.8 NC_003387.1 + 33475 0.66 0.673105
Target:  5'- aAGuCGcCGAgGCGGUCGGcgcCCGcgaUCGCg -3'
miRNA:   3'- gUC-GC-GCUgCGCUAGCCaa-GGC---AGCG- -5'
13005 3' -56.8 NC_003387.1 + 34516 0.66 0.673105
Target:  5'- gCGGCGC--CGCGAuccUCGGgcugcCCGUCGa -3'
miRNA:   3'- -GUCGCGcuGCGCU---AGCCaa---GGCAGCg -5'
13005 3' -56.8 NC_003387.1 + 25298 0.66 0.662383
Target:  5'- cCAGgGCGACGuCGGcgCGGUggugccagcgCgCGUCGUa -3'
miRNA:   3'- -GUCgCGCUGC-GCUa-GCCAa---------G-GCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 2004 0.66 0.655937
Target:  5'- uGGcCGUGACGCuGGcccugcUCGGUgccgccgacggccgCCGUCGCc -3'
miRNA:   3'- gUC-GCGCUGCG-CU------AGCCAa-------------GGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 881 0.66 0.651635
Target:  5'- gCGGCaGCGACGcCGGUCaGGaUCUucugcagcauGUCGCu -3'
miRNA:   3'- -GUCG-CGCUGC-GCUAG-CCaAGG----------CAGCG- -5'
13005 3' -56.8 NC_003387.1 + 6850 0.66 0.645177
Target:  5'- gAGCGCGAcCGCucagggcgccaacaaGAcgcCGGUcgCCGUCGUg -3'
miRNA:   3'- gUCGCGCU-GCG---------------CUa--GCCAa-GGCAGCG- -5'
13005 3' -56.8 NC_003387.1 + 52236 0.66 0.645176
Target:  5'- gGGCGCGcauCGCGAcgagcagcucgcgcCGGUcgCCGUCGg -3'
miRNA:   3'- gUCGCGCu--GCGCUa-------------GCCAa-GGCAGCg -5'
13005 3' -56.8 NC_003387.1 + 43675 0.66 0.640869
Target:  5'- gAGgGCGACGCGAUCcuGGcgUgGaUCGCc -3'
miRNA:   3'- gUCgCGCUGCGCUAG--CCaaGgC-AGCG- -5'
13005 3' -56.8 NC_003387.1 + 17189 0.66 0.640869
Target:  5'- gCGGCGaCGGCGCGAaagUGGccgaggCCGagGCa -3'
miRNA:   3'- -GUCGC-GCUGCGCUa--GCCaa----GGCagCG- -5'
13005 3' -56.8 NC_003387.1 + 9725 0.66 0.640869
Target:  5'- uCAGCGCGuACG-GGUCGGcgUCaagGUCGg -3'
miRNA:   3'- -GUCGCGC-UGCgCUAGCCa-AGg--CAGCg -5'
13005 3' -56.8 NC_003387.1 + 25930 0.66 0.630096
Target:  5'- cCAGCGCGGCcucgucgaGCGGUgcUGGcgCUGcUCGCu -3'
miRNA:   3'- -GUCGCGCUG--------CGCUA--GCCaaGGC-AGCG- -5'
13005 3' -56.8 NC_003387.1 + 11564 0.66 0.630096
Target:  5'- -uGCG-GugGCGAUCGGcaCCaaggcguacggcGUCGCg -3'
miRNA:   3'- guCGCgCugCGCUAGCCaaGG------------CAGCG- -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.