miRNA display CGI


Results 1 - 20 of 82 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
11500 3' -56.3 NC_003085.1 + 708 0.7 0.373001
Target:  5'- -gGCgCG-GCCuGAGCAgGUCCAcccGCGCCu -3'
miRNA:   3'- agUG-GCaCGGuCUCGU-CAGGU---UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 965 0.74 0.214533
Target:  5'- -gGCCGcUGCCGGGGCAGgac-ACGCCg -3'
miRNA:   3'- agUGGC-ACGGUCUCGUCagguUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 1035 0.7 0.381841
Target:  5'- cUCGCCGU-CCAu-GCGGaggaagCCAGCGCCg -3'
miRNA:   3'- -AGUGGCAcGGUcuCGUCa-----GGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 1490 0.7 0.390818
Target:  5'- gUCACCGUcGCCAGccuCGG-CCGguGCGCCu -3'
miRNA:   3'- -AGUGGCA-CGGUCuc-GUCaGGU--UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 1574 0.69 0.437711
Target:  5'- aCACUG-GCCagAGAGCAGgCCGcacGCGCUg -3'
miRNA:   3'- aGUGGCaCGG--UCUCGUCaGGU---UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 3404 0.66 0.605392
Target:  5'- gCGCCGaaggGCgGGuGCAG-CCGuaucGCGCCu -3'
miRNA:   3'- aGUGGCa---CGgUCuCGUCaGGU----UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 4096 0.66 0.627413
Target:  5'- --uCUGgguggGCCGG-GCGGUCCAGgcUGCCa -3'
miRNA:   3'- aguGGCa----CGGUCuCGUCAGGUU--GCGG- -5'
11500 3' -56.3 NC_003085.1 + 4120 0.66 0.638435
Target:  5'- gCGCCGcGCUGG-Gac-UCCAGCGCCg -3'
miRNA:   3'- aGUGGCaCGGUCuCgucAGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 5687 0.7 0.399933
Target:  5'- aCGCUG-GCCGGuGUugAGUCCAagcccGCGCCc -3'
miRNA:   3'- aGUGGCaCGGUCuCG--UCAGGU-----UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 5795 0.67 0.560612
Target:  5'- aCGCCGUggccuucGUCGGAGCGGUgCGcaucggggagGCGUCa -3'
miRNA:   3'- aGUGGCA-------CGGUCUCGUCAgGU----------UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 6594 0.68 0.476439
Target:  5'- cUUGCCGUGgUgcgucagcagaugGGGGUccucaAGUCCGGCGCCg -3'
miRNA:   3'- -AGUGGCACgG-------------UCUCG-----UCAGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 6816 0.75 0.198058
Target:  5'- gUCACCGUcgacccacccaGCCAGAGgAGUCCuccAUGUCg -3'
miRNA:   3'- -AGUGGCA-----------CGGUCUCgUCAGGu--UGCGG- -5'
11500 3' -56.3 NC_003085.1 + 7107 0.73 0.251013
Target:  5'- cUCGCCG-GCCGGaAGaCGGUCacGCGCCg -3'
miRNA:   3'- -AGUGGCaCGGUC-UC-GUCAGguUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 7340 0.66 0.605392
Target:  5'- gCGCCGUGCauucgcuuGCcGUCCucCGCCa -3'
miRNA:   3'- aGUGGCACGgucu----CGuCAGGuuGCGG- -5'
11500 3' -56.3 NC_003085.1 + 8249 1.12 0.000421
Target:  5'- gUCACCGUGCCAGAGCAGUCCAACGCCu -3'
miRNA:   3'- -AGUGGCACGGUCUCGUCAGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 8795 0.66 0.620801
Target:  5'- gCGCCGgcggcuccgcgagguUGCgCGGcGCAG-CCAGCGUCa -3'
miRNA:   3'- aGUGGC---------------ACG-GUCuCGUCaGGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 8916 0.72 0.315107
Target:  5'- gUCACCGUGCCgucguuguuGGGGaCAGUggugacugugCCAGuCGCCu -3'
miRNA:   3'- -AGUGGCACGG---------UCUC-GUCA----------GGUU-GCGG- -5'
11500 3' -56.3 NC_003085.1 + 9078 0.67 0.550893
Target:  5'- -uGCCG-GCCAGcGCcagAGgcgUCAGCGCCg -3'
miRNA:   3'- agUGGCaCGGUCuCG---UCa--GGUUGCGG- -5'
11500 3' -56.3 NC_003085.1 + 11064 0.66 0.594411
Target:  5'- cCAUCGUGCCGGuGCccGUaCUGGgGCCa -3'
miRNA:   3'- aGUGGCACGGUCuCGu-CA-GGUUgCGG- -5'
11500 3' -56.3 NC_003085.1 + 11128 0.66 0.638435
Target:  5'- gUUGCgCGUGCCAggcccGAGCuuuAGgcaCGACGCCa -3'
miRNA:   3'- -AGUG-GCACGGU-----CUCG---UCag-GUUGCGG- -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.