miRNA display CGI


Results 1 - 20 of 43 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
7037 3' -59.6 NC_001876.1 + 7774 0.66 0.375141
Target:  5'- aGCAu--CCCGGCccGCGCUgacaggccgCGCCUuCCCu -3'
miRNA:   3'- -CGUuuuGGGCCG--CGUGG---------GCGGAcGGG- -5'
7037 3' -59.6 NC_001876.1 + 218 0.73 0.128355
Target:  5'- cGCGccGCCCcGCGCGccgccCCCGCC-GCCCu -3'
miRNA:   3'- -CGUuuUGGGcCGCGU-----GGGCGGaCGGG- -5'
7037 3' -59.6 NC_001876.1 + 10322 0.68 0.252418
Target:  5'- gGC--AugCCGGCGCGCaaCUGCCgaccgGCCUu -3'
miRNA:   3'- -CGuuUugGGCCGCGUG--GGCGGa----CGGG- -5'
7037 3' -59.6 NC_001876.1 + 12700 0.68 0.252418
Target:  5'- cGCGc-GCCCGGCgacGCGCCucucugCGCCUGUgCCg -3'
miRNA:   3'- -CGUuuUGGGCCG---CGUGG------GCGGACG-GG- -5'
7037 3' -59.6 NC_001876.1 + 22403 0.68 0.286813
Target:  5'- cGCuGAGgCCGcCGCuCCCGCCcUGCCg -3'
miRNA:   3'- -CGuUUUgGGCcGCGuGGGCGG-ACGGg -5'
7037 3' -59.6 NC_001876.1 + 16639 0.68 0.286813
Target:  5'- -gGAAGCCCccGCGCAggcggCCGCC-GCCCg -3'
miRNA:   3'- cgUUUUGGGc-CGCGUg----GGCGGaCGGG- -5'
7037 3' -59.6 NC_001876.1 + 15382 1.13 0.000102
Target:  5'- cGCAAAACCCGGCGCACCCGCCUGCCCu -3'
miRNA:   3'- -CGUUUUGGGCCGCGUGGGCGGACGGG- -5'
7037 3' -59.6 NC_001876.1 + 14744 0.75 0.094028
Target:  5'- cGCAAccuucuGACUCGGCGCACCCcucGCCgucugcgGCgCCg -3'
miRNA:   3'- -CGUU------UUGGGCCGCGUGGG---CGGa------CG-GG- -5'
7037 3' -59.6 NC_001876.1 + 12517 0.72 0.147528
Target:  5'- cGCGAGACgCgGGCGCcgaAgCCGCCgcgugccGCCCa -3'
miRNA:   3'- -CGUUUUG-GgCCGCG---UgGGCGGa------CGGG- -5'
7037 3' -59.6 NC_001876.1 + 24854 0.68 0.265752
Target:  5'- cCGAAGCCUGaGcCGCggaagGCCCGgCUGCCg -3'
miRNA:   3'- cGUUUUGGGC-C-GCG-----UGGGCgGACGGg -5'
7037 3' -59.6 NC_001876.1 + 20751 0.66 0.375141
Target:  5'- uGCGAGGCUgGGUGCcaaGCCaugGCCaGCCa -3'
miRNA:   3'- -CGUUUUGGgCCGCG---UGGg--CGGaCGGg -5'
7037 3' -59.6 NC_001876.1 + 5176 0.76 0.079165
Target:  5'- uGCGAGACCCaGUGCcCCCGC-UGCCa -3'
miRNA:   3'- -CGUUUUGGGcCGCGuGGGCGgACGGg -5'
7037 3' -59.6 NC_001876.1 + 14835 0.66 0.375141
Target:  5'- aGCGGccgcGCgCCGGCcCACCCuGCggGCCCu -3'
miRNA:   3'- -CGUUu---UG-GGCCGcGUGGG-CGgaCGGG- -5'
7037 3' -59.6 NC_001876.1 + 6191 0.69 0.23777
Target:  5'- uGCAcAGACCCauugacuauuuugauCGCACCCuaCUGCCCg -3'
miRNA:   3'- -CGU-UUUGGGcc-------------GCGUGGGcgGACGGG- -5'
7037 3' -59.6 NC_001876.1 + 11581 0.8 0.037089
Target:  5'- ---cGGCCCGGUGCGCUCGCgCUGCgCCa -3'
miRNA:   3'- cguuUUGGGCCGCGUGGGCG-GACG-GG- -5'
7037 3' -59.6 NC_001876.1 + 14611 0.66 0.366393
Target:  5'- cGCGGcGACCCacccgaccGGUGCGgCUGCCccaggcgGCCCg -3'
miRNA:   3'- -CGUU-UUGGG--------CCGCGUgGGCGGa------CGGG- -5'
7037 3' -59.6 NC_001876.1 + 17115 0.74 0.102127
Target:  5'- uGCAAgcccgucuuuuucAGCUgGGCGCGCaaCGCUUGCCCg -3'
miRNA:   3'- -CGUU-------------UUGGgCCGCGUGg-GCGGACGGG- -5'
7037 3' -59.6 NC_001876.1 + 22731 0.68 0.27965
Target:  5'- aGCAGc-CCCGaGC-CGCCCGCC-GCUCc -3'
miRNA:   3'- -CGUUuuGGGC-CGcGUGGGCGGaCGGG- -5'
7037 3' -59.6 NC_001876.1 + 11016 0.68 0.27263
Target:  5'- cGCGcGACCgCGGCG-GCCgcuuUGCCgggGCCCg -3'
miRNA:   3'- -CGUuUUGG-GCCGCgUGG----GCGGa--CGGG- -5'
7037 3' -59.6 NC_001876.1 + 12474 0.68 0.259015
Target:  5'- cGCGu--CUCGcGCGCACacaccaCCGCCgccGCCCg -3'
miRNA:   3'- -CGUuuuGGGC-CGCGUG------GGCGGa--CGGG- -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.