miRNA display CGI


Results 1 - 20 of 53 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
27410 3' -65.3 NC_005869.1 + 24455 0.66 0.220263
Target:  5'- -aGCucaGCCGCCGCCUggaaGCGG-CCCucuUCu -3'
miRNA:   3'- ggCG---CGGCGGCGGG----CGCCuGGGu--AGc -5'
27410 3' -65.3 NC_005869.1 + 17073 0.66 0.220263
Target:  5'- aCCGCgGUCGCCuccguGCgCGCGGcaGCCCAa-- -3'
miRNA:   3'- -GGCG-CGGCGG-----CGgGCGCC--UGGGUagc -5'
27410 3' -65.3 NC_005869.1 + 18533 0.66 0.220263
Target:  5'- cCCGCG-CGCCaauCCCGCGGGacguCCCGcCa -3'
miRNA:   3'- -GGCGCgGCGGc--GGGCGCCU----GGGUaGc -5'
27410 3' -65.3 NC_005869.1 + 27146 0.66 0.214782
Target:  5'- aCCGCGCCaGCCgGCCC-CaGGCgCCGcaccUCGg -3'
miRNA:   3'- -GGCGCGG-CGG-CGGGcGcCUG-GGU----AGC- -5'
27410 3' -65.3 NC_005869.1 + 26647 0.66 0.214782
Target:  5'- cCCGCGCCGCgacuaCGCGGACUgggaggagggCGUCa -3'
miRNA:   3'- -GGCGCGGCGgcgg-GCGCCUGG----------GUAGc -5'
27410 3' -65.3 NC_005869.1 + 18573 0.66 0.209419
Target:  5'- gCgGCGCCGggcuaCCGCcuccaCCGCGuuGACCaCAUCGg -3'
miRNA:   3'- -GgCGCGGC-----GGCG-----GGCGC--CUGG-GUAGC- -5'
27410 3' -65.3 NC_005869.1 + 15406 0.66 0.209419
Target:  5'- gCCGCGCgCgucuccuccgugGCCGUcaCCGgGGACCCggUGg -3'
miRNA:   3'- -GGCGCG-G------------CGGCG--GGCgCCUGGGuaGC- -5'
27410 3' -65.3 NC_005869.1 + 23289 0.66 0.209419
Target:  5'- cUCGCGCagggcgCGCUGCCCGUucucgcuguuGaGAUCCAUCu -3'
miRNA:   3'- -GGCGCG------GCGGCGGGCG----------C-CUGGGUAGc -5'
27410 3' -65.3 NC_005869.1 + 23795 0.66 0.209419
Target:  5'- gCCGCGCCGUCGCC-GCug--CCGUCu -3'
miRNA:   3'- -GGCGCGGCGGCGGgCGccugGGUAGc -5'
27410 3' -65.3 NC_005869.1 + 33832 0.66 0.208889
Target:  5'- gCCGCucgGCC-CCGcCCCGCGGAggaccgcCCCAg-- -3'
miRNA:   3'- -GGCG---CGGcGGC-GGGCGCCU-------GGGUagc -5'
27410 3' -65.3 NC_005869.1 + 23302 0.66 0.199038
Target:  5'- cCCGUgGgUGCCGCUCGgGGGCCgCcgCGc -3'
miRNA:   3'- -GGCG-CgGCGGCGGGCgCCUGG-GuaGC- -5'
27410 3' -65.3 NC_005869.1 + 18459 0.66 0.194018
Target:  5'- cCUGCGCCGCCGCCgGgugcuccgccucCGGcGCgCCAcCGc -3'
miRNA:   3'- -GGCGCGGCGGCGGgC------------GCC-UG-GGUaGC- -5'
27410 3' -65.3 NC_005869.1 + 7261 0.66 0.194018
Target:  5'- uCUGCuGCCGCCGCugCUGCGG-CCUuccuggagAUCGc -3'
miRNA:   3'- -GGCG-CGGCGGCG--GGCGCCuGGG--------UAGC- -5'
27410 3' -65.3 NC_005869.1 + 11224 0.66 0.194018
Target:  5'- cCCGagaGCCGCUgGCUgGUGGACCUggUGa -3'
miRNA:   3'- -GGCg--CGGCGG-CGGgCGCCUGGGuaGC- -5'
27410 3' -65.3 NC_005869.1 + 15220 0.66 0.194018
Target:  5'- -gGCGcCCGCCGCCUGUccccGGAucacCCCGUg- -3'
miRNA:   3'- ggCGC-GGCGGCGGGCG----CCU----GGGUAgc -5'
27410 3' -65.3 NC_005869.1 + 14967 0.66 0.194018
Target:  5'- aCGCGCCGCUGCguaacagcauccCCGgGGugCag-CGg -3'
miRNA:   3'- gGCGCGGCGGCG------------GGCgCCugGguaGC- -5'
27410 3' -65.3 NC_005869.1 + 6301 0.66 0.189109
Target:  5'- cCCGCaGCCGCUGCugaccCUGgGGACCgucaGUCa -3'
miRNA:   3'- -GGCG-CGGCGGCG-----GGCgCCUGGg---UAGc -5'
27410 3' -65.3 NC_005869.1 + 22587 0.66 0.189109
Target:  5'- cUCGCGCCGCCGCgaggUGCuGACCacgCGc -3'
miRNA:   3'- -GGCGCGGCGGCGg---GCGcCUGGguaGC- -5'
27410 3' -65.3 NC_005869.1 + 17896 0.67 0.184309
Target:  5'- gCCgGCGCUGgUGCCCaucaucGCGGcAUCCAUCu -3'
miRNA:   3'- -GG-CGCGGCgGCGGG------CGCC-UGGGUAGc -5'
27410 3' -65.3 NC_005869.1 + 28596 0.67 0.178231
Target:  5'- aCCGCGCCccGCCGCugccaCCGCcccucaccuaugugGGACCCu--- -3'
miRNA:   3'- -GGCGCGG--CGGCG-----GGCG--------------CCUGGGuagc -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.