miRNA display CGI


Results 1 - 17 of 17 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
12120 3' -53.6 NC_003309.1 + 4314 0.66 0.827978
Target:  5'- gUUGGcgauGACGCCGaUCGAcccuacgCCCGAAGUg -3'
miRNA:   3'- -AGCCu---CUGUGGC-GGCUua-----GGGUUUCG- -5'
12120 3' -53.6 NC_003309.1 + 15478 0.66 0.827978
Target:  5'- uUCGGGucCGCCGUCGGAUugccggCCgGAAGUu -3'
miRNA:   3'- -AGCCUcuGUGGCGGCUUA------GGgUUUCG- -5'
12120 3' -53.6 NC_003309.1 + 35065 0.66 0.827978
Target:  5'- aCGGcGACGUCGCaCcGAUCCCGaccGAGCg -3'
miRNA:   3'- aGCCuCUGUGGCG-GcUUAGGGU---UUCG- -5'
12120 3' -53.6 NC_003309.1 + 5252 0.66 0.818748
Target:  5'- cUCGGgcaccaGGACGCCGCCagcaCCC--GGCg -3'
miRNA:   3'- -AGCC------UCUGUGGCGGcuuaGGGuuUCG- -5'
12120 3' -53.6 NC_003309.1 + 2880 0.66 0.795803
Target:  5'- gCGGGuaaaguccuugaauGACGCCGuCCGAAUCgCGAucgaugaAGCu -3'
miRNA:   3'- aGCCU--------------CUGUGGC-GGCUUAGgGUU-------UCG- -5'
12120 3' -53.6 NC_003309.1 + 18700 0.66 0.789905
Target:  5'- gCGGAuACgGCCGCCGA-UCCgGcGGCc -3'
miRNA:   3'- aGCCUcUG-UGGCGGCUuAGGgUuUCG- -5'
12120 3' -53.6 NC_003309.1 + 41412 0.67 0.769824
Target:  5'- gCGGcaugcgcaAGGCACCGCCcgucGAAUCgaaGAAGCg -3'
miRNA:   3'- aGCC--------UCUGUGGCGG----CUUAGgg-UUUCG- -5'
12120 3' -53.6 NC_003309.1 + 51416 0.67 0.759562
Target:  5'- cUGGAaACAUCGCCGGG--CCAAAGUc -3'
miRNA:   3'- aGCCUcUGUGGCGGCUUagGGUUUCG- -5'
12120 3' -53.6 NC_003309.1 + 543 0.67 0.758528
Target:  5'- uUCGGcuuugcgccgaccAGGCGCUGCCGGcUCgCCGggucGAGCc -3'
miRNA:   3'- -AGCC-------------UCUGUGGCGGCUuAG-GGU----UUCG- -5'
12120 3' -53.6 NC_003309.1 + 23617 0.67 0.749168
Target:  5'- cCGGcGaACACgCGCCGGAUCUCcggauggucguuGAGGCu -3'
miRNA:   3'- aGCCuC-UGUG-GCGGCUUAGGG------------UUUCG- -5'
12120 3' -53.6 NC_003309.1 + 7208 0.67 0.728028
Target:  5'- cCGGcAG-UACCGCCGugauGUCgUAAAGCc -3'
miRNA:   3'- aGCC-UCuGUGGCGGCu---UAGgGUUUCG- -5'
12120 3' -53.6 NC_003309.1 + 34309 0.68 0.717306
Target:  5'- gCGGAGcucgACCGCCGuuucaAGUCCUGAAGg -3'
miRNA:   3'- aGCCUCug--UGGCGGC-----UUAGGGUUUCg -5'
12120 3' -53.6 NC_003309.1 + 32187 0.68 0.7065
Target:  5'- gUCGccGACGCCGCCcgcaCCCAagaGAGCa -3'
miRNA:   3'- -AGCcuCUGUGGCGGcuuaGGGU---UUCG- -5'
12120 3' -53.6 NC_003309.1 + 26043 0.69 0.607255
Target:  5'- gUCGGAGcagucACAgUCGCCGGggCCCAuAGUc -3'
miRNA:   3'- -AGCCUC-----UGU-GGCGGCUuaGGGUuUCG- -5'
12120 3' -53.6 NC_003309.1 + 41032 0.71 0.513816
Target:  5'- gUCGG-GACGCCGCCGcugcacaagcgcgacAGcgCCCAAcAGCu -3'
miRNA:   3'- -AGCCuCUGUGGCGGC---------------UUa-GGGUU-UCG- -5'
12120 3' -53.6 NC_003309.1 + 43914 0.76 0.284919
Target:  5'- gUCGGAGAUACCaGCCGGcAUCCUgcaauGCa -3'
miRNA:   3'- -AGCCUCUGUGG-CGGCU-UAGGGuuu--CG- -5'
12120 3' -53.6 NC_003309.1 + 12923 1.13 0.00076
Target:  5'- aUCGGAGACACCGCCGAAUCCCAAAGCg -3'
miRNA:   3'- -AGCCUCUGUGGCGGCUUAGGGUUUCG- -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.