miRNA display CGI


Results 1 - 20 of 50 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
29940 3' -56.6 NC_006273.1 + 140184 0.66 0.95504
Target:  5'- cGCcGACC-CCGgcuggGCG-GCCGAUGGg- -3'
miRNA:   3'- -UGuUUGGaGGCa----CGCuCGGCUGCCac -5'
29940 3' -56.6 NC_006273.1 + 179976 0.66 0.951188
Target:  5'- uGCAggUauuugUgGUGCGGGCCGugcCGGUGg -3'
miRNA:   3'- -UGUuuGga---GgCACGCUCGGCu--GCCAC- -5'
29940 3' -56.6 NC_006273.1 + 72859 0.66 0.951188
Target:  5'- -aAGGCCaUCGUGCGgacGGCC-ACGGUGu -3'
miRNA:   3'- ugUUUGGaGGCACGC---UCGGcUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 156693 0.66 0.951188
Target:  5'- cCGcGCCUCCGgcgGCGGuGCCcGCGGa- -3'
miRNA:   3'- uGUuUGGAGGCa--CGCU-CGGcUGCCac -5'
29940 3' -56.6 NC_006273.1 + 140328 0.66 0.951188
Target:  5'- gGCGGACCgagagCCG-GCGgcuaGGCCGAgGGa- -3'
miRNA:   3'- -UGUUUGGa----GGCaCGC----UCGGCUgCCac -5'
29940 3' -56.6 NC_006273.1 + 117142 0.66 0.951188
Target:  5'- ---cACCUCCGgauagaaGuGCCGugGGUGu -3'
miRNA:   3'- uguuUGGAGGCacg----CuCGGCugCCAC- -5'
29940 3' -56.6 NC_006273.1 + 145552 0.66 0.947122
Target:  5'- gACGGGgUUCCGggcgGCGGuGCUGGCGGg- -3'
miRNA:   3'- -UGUUUgGAGGCa---CGCU-CGGCUGCCac -5'
29940 3' -56.6 NC_006273.1 + 206691 0.66 0.947122
Target:  5'- aGCAGgucGCCgUCCGUGU-AGCaauuuGACGGUGa -3'
miRNA:   3'- -UGUU---UGG-AGGCACGcUCGg----CUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 209642 0.66 0.946703
Target:  5'- uACAGACCUCCGauggcugUGCGAGuaacuCCGuuGGg- -3'
miRNA:   3'- -UGUUUGGAGGC-------ACGCUC-----GGCugCCac -5'
29940 3' -56.6 NC_006273.1 + 196324 0.66 0.942838
Target:  5'- -uGGACC-CCGcgGcCGAcCCGACGGUGg -3'
miRNA:   3'- ugUUUGGaGGCa-C-GCUcGGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 117816 0.66 0.942838
Target:  5'- gAUGAACCaccgUCCGgaUGgGAGCguuaCGACGGUGg -3'
miRNA:   3'- -UGUUUGG----AGGC--ACgCUCG----GCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 44732 0.66 0.942838
Target:  5'- cCGAACCgCCG-GcCGAGCUggaGAUGGUGg -3'
miRNA:   3'- uGUUUGGaGGCaC-GCUCGG---CUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 1431 0.66 0.942838
Target:  5'- -uGGACC-CCGcgGcCGAcCCGACGGUGg -3'
miRNA:   3'- ugUUUGGaGGCa-C-GCUcGGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 167417 0.66 0.942397
Target:  5'- gACAGACUUCCacagugGCGGGCgcgcucuCGGCGGUc -3'
miRNA:   3'- -UGUUUGGAGGca----CGCUCG-------GCUGCCAc -5'
29940 3' -56.6 NC_006273.1 + 103550 0.66 0.938334
Target:  5'- gGCcAGCCccaggCCGUGCGGGCUGGucgcCGaGUGg -3'
miRNA:   3'- -UGuUUGGa----GGCACGCUCGGCU----GC-CAC- -5'
29940 3' -56.6 NC_006273.1 + 170863 0.67 0.928662
Target:  5'- gGCAggGACa-CCGaUGuCGAGCCGGCGGg- -3'
miRNA:   3'- -UGU--UUGgaGGC-AC-GCUCGGCUGCCac -5'
29940 3' -56.6 NC_006273.1 + 54523 0.67 0.928662
Target:  5'- uGCAGACgUUCaUGuCGAcguaGCCGGCGGUGc -3'
miRNA:   3'- -UGUUUGgAGGcAC-GCU----CGGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 130036 0.67 0.928155
Target:  5'- cCGAGCCUCUuuUGCGAcuguccuGgCGGCGGUGg -3'
miRNA:   3'- uGUUUGGAGGc-ACGCU-------CgGCUGCCAC- -5'
29940 3' -56.6 NC_006273.1 + 229802 0.67 0.923491
Target:  5'- aGCAcGCUUCCGa--GGGCUGGCGGUu -3'
miRNA:   3'- -UGUuUGGAGGCacgCUCGGCUGCCAc -5'
29940 3' -56.6 NC_006273.1 + 193112 0.67 0.923491
Target:  5'- cGCGggUCUCCG-GCGGuaacgaCGGCGGUGu -3'
miRNA:   3'- -UGUuuGGAGGCaCGCUcg----GCUGCCAC- -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.