miRNA display CGI


Results 1 - 20 of 44 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
9078 3' -50.1 NC_002512.2 + 106520 0.66 0.999644
Target:  5'- gGGUGcaGUCUgaucaucAGCUCGAaCGCGUAGUc -3'
miRNA:   3'- -CCAC--CAGAac-----UUGAGCUcGUGCAUCG- -5'
9078 3' -50.1 NC_002512.2 + 19758 0.66 0.999644
Target:  5'- aGUGGUa--GAACUCGcgGGCGCagGGCa -3'
miRNA:   3'- cCACCAgaaCUUGAGC--UCGUGcaUCG- -5'
9078 3' -50.1 NC_002512.2 + 6319 0.66 0.999593
Target:  5'- aGGUGGcCgccgcccgcggggGGAC-CGGGCGCGgGGCc -3'
miRNA:   3'- -CCACCaGaa-----------CUUGaGCUCGUGCaUCG- -5'
9078 3' -50.1 NC_002512.2 + 228288 0.66 0.999556
Target:  5'- uGUGGUCcUGAuggCGAGCGcCGgagaAGCa -3'
miRNA:   3'- cCACCAGaACUugaGCUCGU-GCa---UCG- -5'
9078 3' -50.1 NC_002512.2 + 85534 0.66 0.999547
Target:  5'- cGGcGGUCaUGAcggcgcuggcgggGCUCGAggagGCGCGggAGCg -3'
miRNA:   3'- -CCaCCAGaACU-------------UGAGCU----CGUGCa-UCG- -5'
9078 3' -50.1 NC_002512.2 + 156457 0.66 0.999451
Target:  5'- cGG-GGgcggCgggGGACUCGGGgGCGgcgGGCu -3'
miRNA:   3'- -CCaCCa---Gaa-CUUGAGCUCgUGCa--UCG- -5'
9078 3' -50.1 NC_002512.2 + 166198 0.66 0.999451
Target:  5'- cGUGGccuUCUUGGGCggCGAggagggccgcgcGCGCGUGGg -3'
miRNA:   3'- cCACC---AGAACUUGa-GCU------------CGUGCAUCg -5'
9078 3' -50.1 NC_002512.2 + 221373 0.66 0.999451
Target:  5'- cGGUGGUgUguccucucCUCGGGCGgGgcGCg -3'
miRNA:   3'- -CCACCAgAacuu----GAGCUCGUgCauCG- -5'
9078 3' -50.1 NC_002512.2 + 1744 0.66 0.999451
Target:  5'- cGUGGaCcUGAGCUCGcGCcCGUcGGCg -3'
miRNA:   3'- cCACCaGaACUUGAGCuCGuGCA-UCG- -5'
9078 3' -50.1 NC_002512.2 + 200181 0.66 0.99944
Target:  5'- --cGGUCaUGGGCUCcuccgagacggacGAGCGCGacgAGCc -3'
miRNA:   3'- ccaCCAGaACUUGAG-------------CUCGUGCa--UCG- -5'
9078 3' -50.1 NC_002512.2 + 150648 0.66 0.999416
Target:  5'- aGGUGGcgCUgcgcAGCUCGAGCcucgagguccgcggGCGcGGCg -3'
miRNA:   3'- -CCACCa-GAac--UUGAGCUCG--------------UGCaUCG- -5'
9078 3' -50.1 NC_002512.2 + 143687 0.66 0.999325
Target:  5'- --cGGgCggGGugUCGGGCACGgagGGCc -3'
miRNA:   3'- ccaCCaGaaCUugAGCUCGUGCa--UCG- -5'
9078 3' -50.1 NC_002512.2 + 72879 0.66 0.999325
Target:  5'- cGUuGUCgcgGGGCUCGGGCcCGaAGCg -3'
miRNA:   3'- cCAcCAGaa-CUUGAGCUCGuGCaUCG- -5'
9078 3' -50.1 NC_002512.2 + 108406 0.66 0.999191
Target:  5'- gGGUGGgggggaggacggGGACggcggCGGGCGCGgGGCg -3'
miRNA:   3'- -CCACCagaa--------CUUGa----GCUCGUGCaUCG- -5'
9078 3' -50.1 NC_002512.2 + 136632 0.67 0.998996
Target:  5'- cGUGGcCUUGGACagGGGCagcgacucgaugGCGUAGa -3'
miRNA:   3'- cCACCaGAACUUGagCUCG------------UGCAUCg -5'
9078 3' -50.1 NC_002512.2 + 109519 0.67 0.998785
Target:  5'- cGUGGUCgucacCUCGuGCACGUAc- -3'
miRNA:   3'- cCACCAGaacuuGAGCuCGUGCAUcg -5'
9078 3' -50.1 NC_002512.2 + 187235 0.67 0.998785
Target:  5'- aGGUGGUguuauaCUUGGuCUgCGAGUcccaGCGUGGUc -3'
miRNA:   3'- -CCACCA------GAACUuGA-GCUCG----UGCAUCG- -5'
9078 3' -50.1 NC_002512.2 + 113565 0.67 0.998762
Target:  5'- uGGUGGUCgccgUGGaucaggcACUCGAuCAgGUAGa -3'
miRNA:   3'- -CCACCAGa---ACU-------UGAGCUcGUgCAUCg -5'
9078 3' -50.1 NC_002512.2 + 152335 0.67 0.998512
Target:  5'- gGGUGGUCaUGAcgacaccGCggaccucCGAGCACGgagaccGGCc -3'
miRNA:   3'- -CCACCAGaACU-------UGa------GCUCGUGCa-----UCG- -5'
9078 3' -50.1 NC_002512.2 + 111960 0.67 0.99825
Target:  5'- cGG-GGUCagGAucaUCucGCACGUGGCg -3'
miRNA:   3'- -CCaCCAGaaCUug-AGcuCGUGCAUCG- -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.