miRNA display CGI


Results 1 - 20 of 26 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
8157 3' -55.2 NC_001978.2 + 27227 0.66 0.680797
Target:  5'- uGCGCuc--GCCGGUuucuuCCCGGGCGUg -3'
miRNA:   3'- cCGUGcuucCGGCCAuu---GGGCUUGCA- -5'
8157 3' -55.2 NC_001978.2 + 32153 0.66 0.679694
Target:  5'- cGGCACGGucGGCCGGaacgGcaauacugaucuuGCCCGGcuccgACGa -3'
miRNA:   3'- -CCGUGCUu-CCGGCCa---U-------------UGGGCU-----UGCa -5'
8157 3' -55.2 NC_001978.2 + 9019 0.66 0.669739
Target:  5'- cGGCAUu-GGcGCCGGUAucgcugaggcGCuuGAGCGg -3'
miRNA:   3'- -CCGUGcuUC-CGGCCAU----------UGggCUUGCa -5'
8157 3' -55.2 NC_001978.2 + 23073 0.66 0.669739
Target:  5'- uGUGCuGAAGGacguCGGcAACCCGGGCGg -3'
miRNA:   3'- cCGUG-CUUCCg---GCCaUUGGGCUUGCa -5'
8157 3' -55.2 NC_001978.2 + 7847 0.66 0.658644
Target:  5'- cGCucaGCGAAGaGCCGGgcaggAugCCGAagaACGUu -3'
miRNA:   3'- cCG---UGCUUC-CGGCCa----UugGGCU---UGCA- -5'
8157 3' -55.2 NC_001978.2 + 40280 0.66 0.657532
Target:  5'- gGGCAgCGGGaagggucGGCCGGUccCCCGGuCGg -3'
miRNA:   3'- -CCGU-GCUU-------CCGGCCAuuGGGCUuGCa -5'
8157 3' -55.2 NC_001978.2 + 12910 0.66 0.647523
Target:  5'- aGCGCGAuacGGCCGacgccACCCGccGACGUg -3'
miRNA:   3'- cCGUGCUu--CCGGCcau--UGGGC--UUGCA- -5'
8157 3' -55.2 NC_001978.2 + 35984 0.67 0.62525
Target:  5'- gGGCGacacccCGGAGacuGCCGccGACCCGGGCGUu -3'
miRNA:   3'- -CCGU------GCUUC---CGGCcaUUGGGCUUGCA- -5'
8157 3' -55.2 NC_001978.2 + 11257 0.67 0.614117
Target:  5'- gGGCuuu-GGGCCGGacgggacuACCUGAACGg -3'
miRNA:   3'- -CCGugcuUCCGGCCau------UGGGCUUGCa -5'
8157 3' -55.2 NC_001978.2 + 37503 0.67 0.613005
Target:  5'- cGCAUGAAgcuugugaccgauGGCCGGUuugAAgUCGAGCGg -3'
miRNA:   3'- cCGUGCUU-------------CCGGCCA---UUgGGCUUGCa -5'
8157 3' -55.2 NC_001978.2 + 19424 0.67 0.603001
Target:  5'- aGCGCGAAGagcGCCugaaccGUGACCCGcGCGg -3'
miRNA:   3'- cCGUGCUUC---CGGc-----CAUUGGGCuUGCa -5'
8157 3' -55.2 NC_001978.2 + 25576 0.67 0.591911
Target:  5'- uGGCGCccaGGGGC--GUGACCUGAGCGg -3'
miRNA:   3'- -CCGUGc--UUCCGgcCAUUGGGCUUGCa -5'
8157 3' -55.2 NC_001978.2 + 22829 0.67 0.580854
Target:  5'- --gACGAAGGCagacaGGgcgAGCCCGAcgACGg -3'
miRNA:   3'- ccgUGCUUCCGg----CCa--UUGGGCU--UGCa -5'
8157 3' -55.2 NC_001978.2 + 15874 0.67 0.569842
Target:  5'- gGGCACGucGGCCgacGGgguGCCCGuguuguuCGUg -3'
miRNA:   3'- -CCGUGCuuCCGG---CCau-UGGGCuu-----GCA- -5'
8157 3' -55.2 NC_001978.2 + 2006 0.67 0.569842
Target:  5'- gGGC-CGAagcuGGGUgagaCGGUcgaccaccuuGACCCGGACGUg -3'
miRNA:   3'- -CCGuGCU----UCCG----GCCA----------UUGGGCUUGCA- -5'
8157 3' -55.2 NC_001978.2 + 12836 0.68 0.558881
Target:  5'- aGCACGucGGCgGGUGGCgUCGGcCGUa -3'
miRNA:   3'- cCGUGCuuCCGgCCAUUG-GGCUuGCA- -5'
8157 3' -55.2 NC_001978.2 + 14807 0.69 0.505128
Target:  5'- cGGCAUGAAGGuUCGG-GACgCCGAcauuACGg -3'
miRNA:   3'- -CCGUGCUUCC-GGCCaUUG-GGCU----UGCa -5'
8157 3' -55.2 NC_001978.2 + 5184 0.69 0.494635
Target:  5'- cGGCggaACGcuGAGcGCCGG-AGCCCGAACc- -3'
miRNA:   3'- -CCG---UGC--UUC-CGGCCaUUGGGCUUGca -5'
8157 3' -55.2 NC_001978.2 + 36257 0.69 0.463781
Target:  5'- gGGCACGAAGGCgauuGUGcgaACCCGG-CGg -3'
miRNA:   3'- -CCGUGCUUCCGgc--CAU---UGGGCUuGCa -5'
8157 3' -55.2 NC_001978.2 + 25345 0.7 0.44378
Target:  5'- uGGCGC----GCCGGUAACCCGAcuucgcAUGUg -3'
miRNA:   3'- -CCGUGcuucCGGCCAUUGGGCU------UGCA- -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.