miRNA display CGI


Results 1 - 20 of 27 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
11884 3' -56.1 NC_003266.2 + 20158 0.66 0.548398
Target:  5'- cCACCAACGugcCCAUCUccauCCCCuCGCg -3'
miRNA:   3'- aGUGGUUGC---GGUAGGacuuGGGG-GUG- -5'
11884 3' -56.1 NC_003266.2 + 22169 0.66 0.548397
Target:  5'- cCACCAugGgCCGgcagaCCUGcaagauGACCCCCu- -3'
miRNA:   3'- aGUGGUugC-GGUa----GGAC------UUGGGGGug -5'
11884 3' -56.1 NC_003266.2 + 27653 0.66 0.546184
Target:  5'- cCACCAACGCUA-CCgucgagaccucguUGAaucuaauACCaCCCACa -3'
miRNA:   3'- aGUGGUUGCGGUaGG-------------ACU-------UGG-GGGUG- -5'
11884 3' -56.1 NC_003266.2 + 20007 0.66 0.526395
Target:  5'- uUCACCAgcauuaaccucuACGCCA-CCUucuUCCCCAUg -3'
miRNA:   3'- -AGUGGU------------UGCGGUaGGAcuuGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 24370 0.66 0.519858
Target:  5'- uUCGCCGACGCagaaAUUCUgcgcaaggucgaggaGAACCUgCACu -3'
miRNA:   3'- -AGUGGUUGCGg---UAGGA---------------CUUGGGgGUG- -5'
11884 3' -56.1 NC_003266.2 + 25032 0.67 0.479261
Target:  5'- cUCugC-ACGCCGcaccgcucccuggCCUGcAACCCCCAg -3'
miRNA:   3'- -AGugGuUGCGGUa------------GGAC-UUGGGGGUg -5'
11884 3' -56.1 NC_003266.2 + 27170 0.67 0.472991
Target:  5'- -aGCCAGCGCCcgAUCCUGGuCCagcgCCAa -3'
miRNA:   3'- agUGGUUGCGG--UAGGACUuGGg---GGUg -5'
11884 3' -56.1 NC_003266.2 + 23883 0.67 0.458525
Target:  5'- gCACCcGCGCCGacucccuuuucaaCCUGGGCCCCgGu -3'
miRNA:   3'- aGUGGuUGCGGUa------------GGACUUGGGGgUg -5'
11884 3' -56.1 NC_003266.2 + 8496 0.67 0.452398
Target:  5'- cCACCAcUGCCuccggGUCCcGAgccGCCCCUACc -3'
miRNA:   3'- aGUGGUuGCGG-----UAGGaCU---UGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 30450 0.67 0.442287
Target:  5'- aUCGCCuaccuGCGCCA-CC---ACCCCCAg -3'
miRNA:   3'- -AGUGGu----UGCGGUaGGacuUGGGGGUg -5'
11884 3' -56.1 NC_003266.2 + 17701 0.67 0.442287
Target:  5'- -gAUCAACaGCCG-CCUGGAcccgguucCCCCCGCc -3'
miRNA:   3'- agUGGUUG-CGGUaGGACUU--------GGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 15605 0.68 0.432304
Target:  5'- -gGCCGACGCUcgCaacuacACCCCCGCc -3'
miRNA:   3'- agUGGUUGCGGuaGgacu--UGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 13679 0.68 0.432304
Target:  5'- -aACCcguuCGCUcaCCUGcGCCCCCGCg -3'
miRNA:   3'- agUGGuu--GCGGuaGGACuUGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 3643 0.68 0.422455
Target:  5'- cCGCCAGCGCCGUgcgcggaauggCCaUGGGCgCCgGCu -3'
miRNA:   3'- aGUGGUUGCGGUA-----------GG-ACUUGgGGgUG- -5'
11884 3' -56.1 NC_003266.2 + 31158 0.68 0.403166
Target:  5'- cCACCGAccauCGCCucUCCUacGAGCUCCUGCa -3'
miRNA:   3'- aGUGGUU----GCGGu-AGGA--CUUGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 11952 0.68 0.393734
Target:  5'- gCAgCAACaGCCAccUCCUGA-UCCCCAa -3'
miRNA:   3'- aGUgGUUG-CGGU--AGGACUuGGGGGUg -5'
11884 3' -56.1 NC_003266.2 + 9670 0.68 0.393733
Target:  5'- cCACCAucCGCCGUCUcaGAACCgCCUAUu -3'
miRNA:   3'- aGUGGUu-GCGGUAGGa-CUUGG-GGGUG- -5'
11884 3' -56.1 NC_003266.2 + 8337 0.69 0.360984
Target:  5'- cCACCAacgGCGCgGUggagaucaaguaccaUCUGGACCuCCCGCg -3'
miRNA:   3'- aGUGGU---UGCGgUA---------------GGACUUGG-GGGUG- -5'
11884 3' -56.1 NC_003266.2 + 12659 0.69 0.348771
Target:  5'- aCACCGucGCGCgGUCCccgaccgGAGCCUgCACg -3'
miRNA:   3'- aGUGGU--UGCGgUAGGa------CUUGGGgGUG- -5'
11884 3' -56.1 NC_003266.2 + 15887 0.71 0.277403
Target:  5'- -uGCCGGCGCUGgcgCCUGAAgCCgCGCg -3'
miRNA:   3'- agUGGUUGCGGUa--GGACUUgGGgGUG- -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.