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
23516 5' -55.6 NC_005259.1 + 47037 0.66 0.773611
Target:  5'- aGCAG-GcCGggGaucuGCGCGAGC-GUGUUg -3'
miRNA:   3'- -CGUCaC-GCuuCg---UGCGCUCGuCACGG- -5'
23516 5' -55.6 NC_005259.1 + 11128 0.66 0.772618
Target:  5'- aCGGUGCGAgccgucgccugcgGGUAacacuucggUGCG-GCAGUGCUu -3'
miRNA:   3'- cGUCACGCU-------------UCGU---------GCGCuCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 27151 0.66 0.770628
Target:  5'- uGCGGUGuUGggGCcaacgaugccgucgGCGaUGAGCAG-GCUg -3'
miRNA:   3'- -CGUCAC-GCuuCG--------------UGC-GCUCGUCaCGG- -5'
23516 5' -55.6 NC_005259.1 + 2928 0.66 0.76362
Target:  5'- cGgAGUaGCGAaagcguccaaGGCGCGCGAGacccugGCCa -3'
miRNA:   3'- -CgUCA-CGCU----------UCGUGCGCUCguca--CGG- -5'
23516 5' -55.6 NC_005259.1 + 31226 0.66 0.76362
Target:  5'- uCAGUcCGAugagaccauuGgGCGCG-GCGGUGCCg -3'
miRNA:   3'- cGUCAcGCUu---------CgUGCGCuCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 27994 0.66 0.76362
Target:  5'- gGUGGUGCGGGuGC-CG-GGGCGGggucGCCg -3'
miRNA:   3'- -CGUCACGCUU-CGuGCgCUCGUCa---CGG- -5'
23516 5' -55.6 NC_005259.1 + 41897 0.66 0.76362
Target:  5'- cGCA-UGCGGgaugAGCGCGgGAGCucgaaGGUGaCCc -3'
miRNA:   3'- -CGUcACGCU----UCGUGCgCUCG-----UCAC-GG- -5'
23516 5' -55.6 NC_005259.1 + 66255 0.66 0.76362
Target:  5'- cGCAGcGCGGccCGCGcCGGGCGGcgGCUc -3'
miRNA:   3'- -CGUCaCGCUucGUGC-GCUCGUCa-CGG- -5'
23516 5' -55.6 NC_005259.1 + 43063 0.66 0.76362
Target:  5'- aCGGggucgGUGAGGaACGCGAGCccguUGCCg -3'
miRNA:   3'- cGUCa----CGCUUCgUGCGCUCGuc--ACGG- -5'
23516 5' -55.6 NC_005259.1 + 65317 0.66 0.753499
Target:  5'- aGCuGUGCGAAGaguucgAUGuCGAGCugcuGUGCg -3'
miRNA:   3'- -CGuCACGCUUCg-----UGC-GCUCGu---CACGg -5'
23516 5' -55.6 NC_005259.1 + 17273 0.66 0.745314
Target:  5'- gGCAGUGCucgaccgcuauuuGAAGCgguacuugacccuguACGcCGAGCGGUaccccgaggguguGCCg -3'
miRNA:   3'- -CGUCACG-------------CUUCG---------------UGC-GCUCGUCA-------------CGG- -5'
23516 5' -55.6 NC_005259.1 + 27395 0.66 0.743257
Target:  5'- gGCGGUGuCGGcAGCG-GCGgcAGCucGGUGCCc -3'
miRNA:   3'- -CGUCAC-GCU-UCGUgCGC--UCG--UCACGG- -5'
23516 5' -55.6 NC_005259.1 + 47691 0.66 0.732905
Target:  5'- uGCA-UGCccGGUuggauGCGCG-GCAGUGCCu -3'
miRNA:   3'- -CGUcACGcuUCG-----UGCGCuCGUCACGG- -5'
23516 5' -55.6 NC_005259.1 + 53562 0.66 0.722456
Target:  5'- gGCGGUGCGAuccgAGUAcggaacacCGUGAGguGUuCCu -3'
miRNA:   3'- -CGUCACGCU----UCGU--------GCGCUCguCAcGG- -5'
23516 5' -55.6 NC_005259.1 + 1885 0.66 0.722456
Target:  5'- aGCAGgccGCcGAGauCGCGCGAGC--UGCCg -3'
miRNA:   3'- -CGUCa--CGcUUC--GUGCGCUCGucACGG- -5'
23516 5' -55.6 NC_005259.1 + 44957 0.67 0.701306
Target:  5'- gGCAGUGCGGucaucGGgAUGCcgaGGGCcGGUGCg -3'
miRNA:   3'- -CGUCACGCU-----UCgUGCG---CUCG-UCACGg -5'
23516 5' -55.6 NC_005259.1 + 21176 0.67 0.701306
Target:  5'- gGCAGU-CG-GGUcaucgGCGCGAGCaccaagcugcaaGGUGCCg -3'
miRNA:   3'- -CGUCAcGCuUCG-----UGCGCUCG------------UCACGG- -5'
23516 5' -55.6 NC_005259.1 + 33093 0.67 0.701306
Target:  5'- uGUAG-GU-AGGCcCGCGAGC-GUGCCu -3'
miRNA:   3'- -CGUCaCGcUUCGuGCGCUCGuCACGG- -5'
23516 5' -55.6 NC_005259.1 + 60578 0.67 0.701306
Target:  5'- uCAG-GCGGccCACgGCGAGUcgGGUGCCg -3'
miRNA:   3'- cGUCaCGCUucGUG-CGCUCG--UCACGG- -5'
23516 5' -55.6 NC_005259.1 + 33384 0.67 0.690627
Target:  5'- cCGGUccGCcGAGCGCGaCGAGCcGUGUCc -3'
miRNA:   3'- cGUCA--CGcUUCGUGC-GCUCGuCACGG- -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.