miRNA display CGI


Results 1 - 20 of 23 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
12175 3' -56.2 NC_003309.1 + 11976 0.66 0.630239
Target:  5'- aGCcgCGgCGCgCGCCGCGucgGCGUUg -3'
miRNA:   3'- aCGa-GCaGCGgGCGGCGUuuaCGUAA- -5'
12175 3' -56.2 NC_003309.1 + 10397 0.66 0.612365
Target:  5'- aGCUCGaUCGCCCugcgcuuuggcgagcGCCGCc--UGCGc- -3'
miRNA:   3'- aCGAGC-AGCGGG---------------CGGCGuuuACGUaa -5'
12175 3' -56.2 NC_003309.1 + 10066 0.66 0.607902
Target:  5'- aGCguaucCGUgcCGCCCGCCGCGc--GCGUc -3'
miRNA:   3'- aCGa----GCA--GCGGGCGGCGUuuaCGUAa -5'
12175 3' -56.2 NC_003309.1 + 22329 0.66 0.607902
Target:  5'- gUGCUCGacgcaagCGCCgGCCGCc-AUGCc-- -3'
miRNA:   3'- -ACGAGCa------GCGGgCGGCGuuUACGuaa -5'
12175 3' -56.2 NC_003309.1 + 9483 0.66 0.59676
Target:  5'- cGUUCGagGCaaaCGCCGCAucgcuGUGCGc- -3'
miRNA:   3'- aCGAGCagCGg--GCGGCGUu----UACGUaa -5'
12175 3' -56.2 NC_003309.1 + 16087 0.66 0.595648
Target:  5'- cGCUCGgcugUGCCgaCGCCcccggauGCGAAUGCAc- -3'
miRNA:   3'- aCGAGCa---GCGG--GCGG-------CGUUUACGUaa -5'
12175 3' -56.2 NC_003309.1 + 47602 0.66 0.58565
Target:  5'- cGgUCGUCGCCgCGCCGUccg-GCu-- -3'
miRNA:   3'- aCgAGCAGCGG-GCGGCGuuuaCGuaa -5'
12175 3' -56.2 NC_003309.1 + 23434 0.67 0.552594
Target:  5'- aGCagGUCGCCCaaucgaGCCGCucGAUGUAc- -3'
miRNA:   3'- aCGagCAGCGGG------CGGCGu-UUACGUaa -5'
12175 3' -56.2 NC_003309.1 + 22362 0.67 0.541694
Target:  5'- cUGCUCGUCgGCaaGCCGau-GUGCGc- -3'
miRNA:   3'- -ACGAGCAG-CGggCGGCguuUACGUaa -5'
12175 3' -56.2 NC_003309.1 + 16809 0.67 0.541694
Target:  5'- aGCUCGUC-CUCGCCGagauUGCGc- -3'
miRNA:   3'- aCGAGCAGcGGGCGGCguuuACGUaa -5'
12175 3' -56.2 NC_003309.1 + 10167 0.68 0.498891
Target:  5'- cGCUCG-CGCCCGUCGCu--UGa--- -3'
miRNA:   3'- aCGAGCaGCGGGCGGCGuuuACguaa -5'
12175 3' -56.2 NC_003309.1 + 10870 0.68 0.488421
Target:  5'- cGCUCGcUCGCgCGCCuGCGug-GCAa- -3'
miRNA:   3'- aCGAGC-AGCGgGCGG-CGUuuaCGUaa -5'
12175 3' -56.2 NC_003309.1 + 19894 0.68 0.488421
Target:  5'- aGCUCGaUCGCUgcugCGCCGCGAccGUGUc-- -3'
miRNA:   3'- aCGAGC-AGCGG----GCGGCGUU--UACGuaa -5'
12175 3' -56.2 NC_003309.1 + 11451 0.68 0.478056
Target:  5'- aGUUCGUCG-CCGCCGUcuguUGCGg- -3'
miRNA:   3'- aCGAGCAGCgGGCGGCGuuu-ACGUaa -5'
12175 3' -56.2 NC_003309.1 + 10304 0.68 0.45766
Target:  5'- cGCU-GUCGCCgccugcguCGCCGCGAcUGCGg- -3'
miRNA:   3'- aCGAgCAGCGG--------GCGGCGUUuACGUaa -5'
12175 3' -56.2 NC_003309.1 + 11227 0.69 0.437739
Target:  5'- cUGCgCGUCGUCUGCCGCGc--GCGa- -3'
miRNA:   3'- -ACGaGCAGCGGGCGGCGUuuaCGUaa -5'
12175 3' -56.2 NC_003309.1 + 19794 0.69 0.399442
Target:  5'- cGuCUCGUCGCCCG-CGUAAAUcgucGCGUc -3'
miRNA:   3'- aC-GAGCAGCGGGCgGCGUUUA----CGUAa -5'
12175 3' -56.2 NC_003309.1 + 11832 0.69 0.399442
Target:  5'- gGUUCGcgCGCCCGCCGCg---GCu-- -3'
miRNA:   3'- aCGAGCa-GCGGGCGGCGuuuaCGuaa -5'
12175 3' -56.2 NC_003309.1 + 31648 0.7 0.390207
Target:  5'- cUGCUCGcagUGCCCGCuCGC--GUGCGc- -3'
miRNA:   3'- -ACGAGCa--GCGGGCG-GCGuuUACGUaa -5'
12175 3' -56.2 NC_003309.1 + 19169 0.7 0.363355
Target:  5'- aGCUCGUCGCgugguUCGCCGCAucccacGCGa- -3'
miRNA:   3'- aCGAGCAGCG-----GGCGGCGUuua---CGUaa -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.