miRNA display CGI


Results 1 - 19 of 19 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
11477 5' -56.3 NC_003085.1 + 40619 0.66 0.657039
Target:  5'- aCGUCauggCCGCCccuccuGCUCGCgcagcCAUGUCu -3'
miRNA:   3'- aGCGGa---GGCGGu-----UGAGCGa----GUACAGc -5'
11477 5' -56.3 NC_003085.1 + 773 0.66 0.657039
Target:  5'- cCGCCacgCCGCgCAACggugCGCcCAUGUUc -3'
miRNA:   3'- aGCGGa--GGCG-GUUGa---GCGaGUACAGc -5'
11477 5' -56.3 NC_003085.1 + 740 0.66 0.657039
Target:  5'- gUCGCCUCCGCUggUugccggaguucgUCGCcgCA-GUUGc -3'
miRNA:   3'- -AGCGGAGGCGGuuG------------AGCGa-GUaCAGC- -5'
11477 5' -56.3 NC_003085.1 + 44140 0.66 0.655943
Target:  5'- uUCGCCUCCagcgugGCCAcgcGCUCGCggagggaggcgacUUcgGUCu -3'
miRNA:   3'- -AGCGGAGG------CGGU---UGAGCG-------------AGuaCAGc -5'
11477 5' -56.3 NC_003085.1 + 38908 0.66 0.646065
Target:  5'- uUCGCCUCuugCGCCGccACUCGCgcuccagCAcuUCGa -3'
miRNA:   3'- -AGCGGAG---GCGGU--UGAGCGa------GUacAGC- -5'
11477 5' -56.3 NC_003085.1 + 33941 0.66 0.639472
Target:  5'- cCGCCUgCGCCAG-UCGCUuCAacuccgccaagucaaUGUCa -3'
miRNA:   3'- aGCGGAgGCGGUUgAGCGA-GU---------------ACAGc -5'
11477 5' -56.3 NC_003085.1 + 42546 0.67 0.580288
Target:  5'- uUCGCCUCgGCCAGCgCGCgg--G-CGa -3'
miRNA:   3'- -AGCGGAGgCGGUUGaGCGaguaCaGC- -5'
11477 5' -56.3 NC_003085.1 + 22751 0.67 0.5792
Target:  5'- gCGCCgucaCCGCCcuGCgcgCGCUCGagugccuUGUCGu -3'
miRNA:   3'- aGCGGa---GGCGGu-UGa--GCGAGU-------ACAGC- -5'
11477 5' -56.3 NC_003085.1 + 23841 0.68 0.509737
Target:  5'- -aGCCUCgGCCcACUCGCuuccugagcccccauUCGcGUCGg -3'
miRNA:   3'- agCGGAGgCGGuUGAGCG---------------AGUaCAGC- -5'
11477 5' -56.3 NC_003085.1 + 27698 0.68 0.48495
Target:  5'- uUCGCCUggGCCAgaauGCUCGC-CAcGUCGu -3'
miRNA:   3'- -AGCGGAggCGGU----UGAGCGaGUaCAGC- -5'
11477 5' -56.3 NC_003085.1 + 40943 0.69 0.474792
Target:  5'- cCGCCUUCGCCuGCgccCGCUgGUGcgCGu -3'
miRNA:   3'- aGCGGAGGCGGuUGa--GCGAgUACa-GC- -5'
11477 5' -56.3 NC_003085.1 + 14516 0.7 0.41531
Target:  5'- gCGCCUCCGCCGgccagcaACUCcGCcgCGUG-CGc -3'
miRNA:   3'- aGCGGAGGCGGU-------UGAG-CGa-GUACaGC- -5'
11477 5' -56.3 NC_003085.1 + 23937 0.7 0.406925
Target:  5'- -aGCCUCCGCCAuCU-GCUCAg--CGa -3'
miRNA:   3'- agCGGAGGCGGUuGAgCGAGUacaGC- -5'
11477 5' -56.3 NC_003085.1 + 44812 0.7 0.397734
Target:  5'- cUCGCCUCUGCCAcCgggggCGCgagggUCGUaGUCGa -3'
miRNA:   3'- -AGCGGAGGCGGUuGa----GCG-----AGUA-CAGC- -5'
11477 5' -56.3 NC_003085.1 + 23448 0.7 0.379758
Target:  5'- gCGCagcgUCGCCAAUUCGUuguucuUCGUGUCGa -3'
miRNA:   3'- aGCGga--GGCGGUUGAGCG------AGUACAGC- -5'
11477 5' -56.3 NC_003085.1 + 33016 0.72 0.321252
Target:  5'- aUUGCCUCCGUCAGCgacgCGCUCucuacCGg -3'
miRNA:   3'- -AGCGGAGGCGGUUGa---GCGAGuaca-GC- -5'
11477 5' -56.3 NC_003085.1 + 41795 0.72 0.290969
Target:  5'- uUCGCCccCCaGCacaGGCUCGCgCAUGUCGg -3'
miRNA:   3'- -AGCGGa-GG-CGg--UUGAGCGaGUACAGC- -5'
11477 5' -56.3 NC_003085.1 + 6969 0.73 0.276686
Target:  5'- -aGCCaUCCGgCGAUUCGCUCAcGUCu -3'
miRNA:   3'- agCGG-AGGCgGUUGAGCGAGUaCAGc -5'
11477 5' -56.3 NC_003085.1 + 16898 1.08 0.000823
Target:  5'- cUCGCCUCCGCCAACUCGCUCAUGUCGc -3'
miRNA:   3'- -AGCGGAGGCGGUUGAGCGAGUACAGC- -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.