miRNA display CGI


Results 1 - 20 of 30 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
17185 3' -55.8 NC_004333.2 + 31659 1.14 0.000387
Target:  5'- uGCUCGAUCGGGCCGGACUUCGCAUCCg -3'
miRNA:   3'- -CGAGCUAGCCCGGCCUGAAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 4157 0.81 0.095164
Target:  5'- cGCUCGGUaaGGGCgGcGACUUCGCAUCg -3'
miRNA:   3'- -CGAGCUAg-CCCGgC-CUGAAGCGUAGg -5'
17185 3' -55.8 NC_004333.2 + 19232 0.8 0.10385
Target:  5'- cGCUCGAgcaauaCGGGCUGGACgugacgaacaugcaCGCAUCCg -3'
miRNA:   3'- -CGAGCUa-----GCCCGGCCUGaa------------GCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 43429 0.8 0.109536
Target:  5'- cGCUCgGGUCGGGCugaCGGACgcgCGCAUCg -3'
miRNA:   3'- -CGAG-CUAGCCCG---GCCUGaa-GCGUAGg -5'
17185 3' -55.8 NC_004333.2 + 29897 0.77 0.161242
Target:  5'- uGCgCGAUCGGGCCGcGCgcgGCAUCCu -3'
miRNA:   3'- -CGaGCUAGCCCGGCcUGaagCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 9203 0.75 0.21634
Target:  5'- -gUCGAUCGcGGUgCGcaccGACUUCGCAUCCa -3'
miRNA:   3'- cgAGCUAGC-CCG-GC----CUGAAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 45083 0.73 0.294022
Target:  5'- cGCgCGGUCGagcGGCCGGACagCGCG-CCg -3'
miRNA:   3'- -CGaGCUAGC---CCGGCCUGaaGCGUaGG- -5'
17185 3' -55.8 NC_004333.2 + 11806 0.72 0.356967
Target:  5'- uGC-CGGUCGGcuGCCGGACaUCGCGcaggacgCCa -3'
miRNA:   3'- -CGaGCUAGCC--CGGCCUGaAGCGUa------GG- -5'
17185 3' -55.8 NC_004333.2 + 30470 0.71 0.41004
Target:  5'- aUUCGGUcCGGcGCCGGucGCUUCGaCGUUCg -3'
miRNA:   3'- cGAGCUA-GCC-CGGCC--UGAAGC-GUAGG- -5'
17185 3' -55.8 NC_004333.2 + 19887 0.7 0.42879
Target:  5'- ---gGAUCGGGCCGGcaucggucaGCagCGCAUCg -3'
miRNA:   3'- cgagCUAGCCCGGCC---------UGaaGCGUAGg -5'
17185 3' -55.8 NC_004333.2 + 40766 0.7 0.438352
Target:  5'- cGCggCGAUCGGGuuGGuguuCUUUGCggUCg -3'
miRNA:   3'- -CGa-GCUAGCCCggCCu---GAAGCGuaGG- -5'
17185 3' -55.8 NC_004333.2 + 8300 0.7 0.467752
Target:  5'- cCUCGcgCGGGCCGG----CGuCAUCCu -3'
miRNA:   3'- cGAGCuaGCCCGGCCugaaGC-GUAGG- -5'
17185 3' -55.8 NC_004333.2 + 12326 0.69 0.518869
Target:  5'- cCUCGcgCGGGuuG-ACgUUCGCAUUCa -3'
miRNA:   3'- cGAGCuaGCCCggCcUG-AAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 37870 0.69 0.518869
Target:  5'- cGCuUCGcAUCGcGCC--GCUUCGCAUCCu -3'
miRNA:   3'- -CG-AGC-UAGCcCGGccUGAAGCGUAGG- -5'
17185 3' -55.8 NC_004333.2 + 30055 0.68 0.572051
Target:  5'- uGCUCGcgcUCGGcGCCGGugGCagCGCggCCg -3'
miRNA:   3'- -CGAGCu--AGCC-CGGCC--UGaaGCGuaGG- -5'
17185 3' -55.8 NC_004333.2 + 26955 0.68 0.582863
Target:  5'- uGCUCGAUCcGGCagaaggugacauCGGGCU-CGCAguguuugCCg -3'
miRNA:   3'- -CGAGCUAGcCCG------------GCCUGAaGCGUa------GG- -5'
17185 3' -55.8 NC_004333.2 + 1854 0.68 0.583946
Target:  5'- gGCUCGAacgccgugaucuaagCGGGCaGGGCUUCgGCccuguUCCa -3'
miRNA:   3'- -CGAGCUa--------------GCCCGgCCUGAAG-CGu----AGG- -5'
17185 3' -55.8 NC_004333.2 + 3290 0.67 0.593715
Target:  5'- gGCgUC-AUCGGGgCGGGCggCGCG-CCg -3'
miRNA:   3'- -CG-AGcUAGCCCgGCCUGaaGCGUaGG- -5'
17185 3' -55.8 NC_004333.2 + 41906 0.67 0.615506
Target:  5'- uGCcCGAccgcUCGcGGCCGGGCgccgUCGUG-CCg -3'
miRNA:   3'- -CGaGCU----AGC-CCGGCCUGa---AGCGUaGG- -5'
17185 3' -55.8 NC_004333.2 + 41865 0.67 0.615506
Target:  5'- aGCUUGAcCGGaaaCGGACUgCGCAcuUCCu -3'
miRNA:   3'- -CGAGCUaGCCcg-GCCUGAaGCGU--AGG- -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.