miRNA display CGI


Results 1 - 20 of 66 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
30546 5' -60.2 NC_006548.1 + 33208 0.66 0.347279
Target:  5'- uCGGGCcgcuGCCCgAGcaccgGCCAGCcCCGGUa -3'
miRNA:   3'- uGUCCGu---UGGG-UCa----CGGUCG-GGUCGg -5'
30546 5' -60.2 NC_006548.1 + 35335 0.66 0.347279
Target:  5'- cGCAGGUA--CCAG-GCC-GCCCAccaucGCCg -3'
miRNA:   3'- -UGUCCGUugGGUCaCGGuCGGGU-----CGG- -5'
30546 5' -60.2 NC_006548.1 + 28967 0.66 0.338956
Target:  5'- cACGGGUGACaCCgaaGGcGCUGGCCUGGUCa -3'
miRNA:   3'- -UGUCCGUUG-GG---UCaCGGUCGGGUCGG- -5'
30546 5' -60.2 NC_006548.1 + 22803 0.66 0.338956
Target:  5'- cCGGGCGcuACCaGGUGCU-GCUCAGCg -3'
miRNA:   3'- uGUCCGU--UGGgUCACGGuCGGGUCGg -5'
30546 5' -60.2 NC_006548.1 + 19402 0.66 0.338956
Target:  5'- aACA-GCAGCUCGcUGCC-GUCCAGCUg -3'
miRNA:   3'- -UGUcCGUUGGGUcACGGuCGGGUCGG- -5'
30546 5' -60.2 NC_006548.1 + 30402 0.66 0.338956
Target:  5'- --uGGCG--UCGGUGCC-GCCCAGgCCa -3'
miRNA:   3'- uguCCGUugGGUCACGGuCGGGUC-GG- -5'
30546 5' -60.2 NC_006548.1 + 20147 0.66 0.338956
Target:  5'- --cGGCAccACCUGGUG-CGGCUCGGCa -3'
miRNA:   3'- uguCCGU--UGGGUCACgGUCGGGUCGg -5'
30546 5' -60.2 NC_006548.1 + 29701 0.66 0.330779
Target:  5'- cGCuGGCAGCggcaCCAGcaccUGCgAGCCCauucgcGGCCg -3'
miRNA:   3'- -UGuCCGUUG----GGUC----ACGgUCGGG------UCGG- -5'
30546 5' -60.2 NC_006548.1 + 5677 0.66 0.330779
Target:  5'- -aAGGCGugCCGGaagaCCAGCUCGacGCCa -3'
miRNA:   3'- ugUCCGUugGGUCac--GGUCGGGU--CGG- -5'
30546 5' -60.2 NC_006548.1 + 14390 0.66 0.322749
Target:  5'- -uGGGCAGCUC---GCCGGCUuCGGCCu -3'
miRNA:   3'- ugUCCGUUGGGucaCGGUCGG-GUCGG- -5'
30546 5' -60.2 NC_006548.1 + 37096 0.66 0.322749
Target:  5'- aGCGGGUAGguCCaggucGUGCCGGUCaAGCCg -3'
miRNA:   3'- -UGUCCGUU--GGgu---CACGGUCGGgUCGG- -5'
30546 5' -60.2 NC_006548.1 + 36615 0.66 0.321954
Target:  5'- cGCGGGgAugCgucgauaCGGUGCCAGCgCCgcaugaGGCCg -3'
miRNA:   3'- -UGUCCgUugG-------GUCACGGUCG-GG------UCGG- -5'
30546 5' -60.2 NC_006548.1 + 18182 0.66 0.314865
Target:  5'- -uGGGgAugCCAGUGCuCAGUCagcGCCu -3'
miRNA:   3'- ugUCCgUugGGUCACG-GUCGGgu-CGG- -5'
30546 5' -60.2 NC_006548.1 + 5646 0.66 0.306362
Target:  5'- ---cGCcaaCCAGUugcgcaaGCCGGCCCGGCCu -3'
miRNA:   3'- ugucCGuugGGUCA-------CGGUCGGGUCGG- -5'
30546 5' -60.2 NC_006548.1 + 27879 0.67 0.299536
Target:  5'- -aGGGCAagguccagACCCAGgaGCuaguucugCAGCUCGGCCa -3'
miRNA:   3'- ugUCCGU--------UGGGUCa-CG--------GUCGGGUCGG- -5'
30546 5' -60.2 NC_006548.1 + 921 0.67 0.299536
Target:  5'- gGCuGGCAACCa-----CAGCCCAGCa -3'
miRNA:   3'- -UGuCCGUUGGgucacgGUCGGGUCGg -5'
30546 5' -60.2 NC_006548.1 + 30778 0.67 0.298785
Target:  5'- -gGGGCugcugaugcCCCGGUGCCGGUcgcuaacgucggaCCAGCg -3'
miRNA:   3'- ugUCCGuu-------GGGUCACGGUCG-------------GGUCGg -5'
30546 5' -60.2 NC_006548.1 + 18980 0.67 0.29209
Target:  5'- uGCAGGCGccauguagGCCCccgaGCCGGaacuggcgauuuCCCGGCCg -3'
miRNA:   3'- -UGUCCGU--------UGGGuca-CGGUC------------GGGUCGG- -5'
30546 5' -60.2 NC_006548.1 + 9790 0.67 0.290619
Target:  5'- uACGGGCGuaaccguuuuccuuuGCCCAcucggugaagguuuUGCCGGCCUGGCg -3'
miRNA:   3'- -UGUCCGU---------------UGGGUc-------------ACGGUCGGGUCGg -5'
30546 5' -60.2 NC_006548.1 + 19974 0.67 0.289153
Target:  5'- cCGGGCGACCaucgagagcgacGUGCCGG-CCGGCg -3'
miRNA:   3'- uGUCCGUUGGgu----------CACGGUCgGGUCGg -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.