miRNA display CGI


Results 1 - 20 of 45 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
12472 5' -56.7 NC_003324.1 + 18209 0.71 0.343995
Target:  5'- cGGCGucgaauacacGCCGCUGcGCGcuaaggucauGGGgGUCAUCUCg -3'
miRNA:   3'- -CCGU----------UGGCGAC-CGC----------UCCgUAGUAGGG- -5'
12472 5' -56.7 NC_003324.1 + 14991 0.66 0.661665
Target:  5'- cGGCAuguuguugACCGCgu-CGAGcGCGUCG-CCCu -3'
miRNA:   3'- -CCGU--------UGGCGaccGCUC-CGUAGUaGGG- -5'
12472 5' -56.7 NC_003324.1 + 24991 0.66 0.650836
Target:  5'- gGGCGGCgUGCUGGCGAuGGUGgugaCAaaCCg -3'
miRNA:   3'- -CCGUUG-GCGACCGCU-CCGUa---GUagGG- -5'
12472 5' -56.7 NC_003324.1 + 42154 0.69 0.495382
Target:  5'- aGGCucguuGCCGUaauccgugcgcuugaUGGCacguGGCAUCGUCCg -3'
miRNA:   3'- -CCGu----UGGCG---------------ACCGcu--CCGUAGUAGGg -5'
12472 5' -56.7 NC_003324.1 + 16075 0.69 0.481222
Target:  5'- uGCGAagGCUGGUGAuGGCAUCG-CCg -3'
miRNA:   3'- cCGUUggCGACCGCU-CCGUAGUaGGg -5'
12472 5' -56.7 NC_003324.1 + 7844 0.66 0.629136
Target:  5'- uGCGAUCGCgccucccuGCGAGGCGUgcUCUCg -3'
miRNA:   3'- cCGUUGGCGac------CGCUCCGUAguAGGG- -5'
12472 5' -56.7 NC_003324.1 + 13161 0.67 0.582609
Target:  5'- cGGCGGCgGUcGGCGGcGGCGguaccggcugcaaaUCGUCaCCg -3'
miRNA:   3'- -CCGUUGgCGaCCGCU-CCGU--------------AGUAG-GG- -5'
12472 5' -56.7 NC_003324.1 + 9859 0.68 0.522163
Target:  5'- aGGgGGuCCGCUGGcCGuuacGcGCAUaCAUCCCa -3'
miRNA:   3'- -CCgUU-GGCGACC-GCu---C-CGUA-GUAGGG- -5'
12472 5' -56.7 NC_003324.1 + 43201 0.7 0.413638
Target:  5'- cGGCAACCuGCgGGacuuuGGCAUUAUgCCCg -3'
miRNA:   3'- -CCGUUGG-CGaCCgcu--CCGUAGUA-GGG- -5'
12472 5' -56.7 NC_003324.1 + 31311 0.8 0.099995
Target:  5'- cGGCGGCgcuggCGCUGGCGGGGgCAUCGUCa- -3'
miRNA:   3'- -CCGUUG-----GCGACCGCUCC-GUAGUAGgg -5'
12472 5' -56.7 NC_003324.1 + 47071 0.66 0.629136
Target:  5'- aGGCAGCC-Cga--GGGGCGUUAUCgCCg -3'
miRNA:   3'- -CCGUUGGcGaccgCUCCGUAGUAG-GG- -5'
12472 5' -56.7 NC_003324.1 + 25629 0.66 0.629136
Target:  5'- aGGCGGCCaGaaGGCGAaauuccggGGCAaCGUCgCCg -3'
miRNA:   3'- -CCGUUGG-CgaCCGCU--------CCGUaGUAG-GG- -5'
12472 5' -56.7 NC_003324.1 + 53362 0.69 0.461341
Target:  5'- --aAGCCGCgaccGGCGGGcGCgAUCAUUCCu -3'
miRNA:   3'- ccgUUGGCGa---CCGCUC-CG-UAGUAGGG- -5'
12472 5' -56.7 NC_003324.1 + 31841 0.69 0.481222
Target:  5'- cGGCAGgCGUUGGCGcccccaguucaAGGCAUCGg--- -3'
miRNA:   3'- -CCGUUgGCGACCGC-----------UCCGUAGUaggg -5'
12472 5' -56.7 NC_003324.1 + 5494 0.67 0.607446
Target:  5'- cGGC-GCCGCaGGUGcGGGCGcCAUCUUc -3'
miRNA:   3'- -CCGuUGGCGaCCGC-UCCGUaGUAGGG- -5'
12472 5' -56.7 NC_003324.1 + 34150 0.74 0.224155
Target:  5'- gGGCGgaGCCGCUGGCauugggcgccguGGGUAUCAUUCUa -3'
miRNA:   3'- -CCGU--UGGCGACCGc-----------UCCGUAGUAGGG- -5'
12472 5' -56.7 NC_003324.1 + 40472 0.68 0.55373
Target:  5'- aGGCGAagGCcGGUGAGGUuuuUCAcCCCu -3'
miRNA:   3'- -CCGUUggCGaCCGCUCCGu--AGUaGGG- -5'
12472 5' -56.7 NC_003324.1 + 35196 0.69 0.481222
Target:  5'- cGGCGACggCGCUGGCGAcgacggaaaGGCAgaUgAUgCCa -3'
miRNA:   3'- -CCGUUG--GCGACCGCU---------CCGU--AgUAgGG- -5'
12472 5' -56.7 NC_003324.1 + 30352 0.74 0.256128
Target:  5'- gGGCGACCGUgccuUGGCcc-GCAUCAUCgCCg -3'
miRNA:   3'- -CCGUUGGCG----ACCGcucCGUAGUAG-GG- -5'
12472 5' -56.7 NC_003324.1 + 35618 0.69 0.451565
Target:  5'- cGGCuuCUGCUGcGCGcaGCAUCAUCUg -3'
miRNA:   3'- -CCGuuGGCGAC-CGCucCGUAGUAGGg -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.