miRNA display CGI


Results 1 - 20 of 25 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
18065 5' -47.6 NC_004680.1 + 27333 0.66 0.989669
Target:  5'- -cCGCCuuccugggugUGGAuCAGGAaCAUGGUGGGCu -3'
miRNA:   3'- caGUGG----------ACUU-GUCUUaGUGCCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 2447 0.66 0.988096
Target:  5'- aUCAuCCcGAACGGGAUaACGGUuGGUg -3'
miRNA:   3'- cAGU-GGaCUUGUCUUAgUGCCAuUCG- -5'
18065 5' -47.6 NC_004680.1 + 12782 0.66 0.988096
Target:  5'- -aCAaCUGGAucacCAGGAUCGCGGgcGGUu -3'
miRNA:   3'- caGUgGACUU----GUCUUAGUGCCauUCG- -5'
18065 5' -47.6 NC_004680.1 + 47693 0.66 0.986343
Target:  5'- -aCGCCUcGACGGuggCGCGGUucGGCu -3'
miRNA:   3'- caGUGGAcUUGUCuuaGUGCCAu-UCG- -5'
18065 5' -47.6 NC_004680.1 + 3398 0.66 0.986343
Target:  5'- aGUCGCCUGAcCGuguGAcgCugGGggagAAGUa -3'
miRNA:   3'- -CAGUGGACUuGU---CUuaGugCCa---UUCG- -5'
18065 5' -47.6 NC_004680.1 + 45464 0.66 0.984398
Target:  5'- uGUUGCCUccACAGggUUAgguaucCGGUAGGUg -3'
miRNA:   3'- -CAGUGGAcuUGUCuuAGU------GCCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 33779 0.67 0.98225
Target:  5'- gGUCggGCCgGGACAGcGGUgACGGUucGGGCa -3'
miRNA:   3'- -CAG--UGGaCUUGUC-UUAgUGCCA--UUCG- -5'
18065 5' -47.6 NC_004680.1 + 48309 0.67 0.98225
Target:  5'- -aCACgUGGGguGAGgcgaUGCGGUGGGCg -3'
miRNA:   3'- caGUGgACUUguCUUa---GUGCCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 14490 0.67 0.979887
Target:  5'- cGUCAaauCCUGcacCAGAGUCGuCuGUGAGCg -3'
miRNA:   3'- -CAGU---GGACuu-GUCUUAGU-GcCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 3353 0.67 0.979887
Target:  5'- -aCACUUGAACAGGAaacccuuuUCAauguuGUGAGCa -3'
miRNA:   3'- caGUGGACUUGUCUU--------AGUgc---CAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 19434 0.67 0.977298
Target:  5'- -aCGCCaccACAuGggUgCGCGGUGAGCa -3'
miRNA:   3'- caGUGGacuUGU-CuuA-GUGCCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 19053 0.67 0.974471
Target:  5'- -aCGCCuaUGAGCuu-GUCcCGGUGGGCg -3'
miRNA:   3'- caGUGG--ACUUGucuUAGuGCCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 17139 0.68 0.968065
Target:  5'- -aCACCUGGGcCAGAGUCGa-GUucGCg -3'
miRNA:   3'- caGUGGACUU-GUCUUAGUgcCAuuCG- -5'
18065 5' -47.6 NC_004680.1 + 21742 0.68 0.968065
Target:  5'- --gACCaGGACGGGA--ACGGUGAGUg -3'
miRNA:   3'- cagUGGaCUUGUCUUagUGCCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 27470 0.68 0.964467
Target:  5'- --uGCCUGGucGCGGGAUCAgUGGaugAAGCa -3'
miRNA:   3'- cagUGGACU--UGUCUUAGU-GCCa--UUCG- -5'
18065 5' -47.6 NC_004680.1 + 5514 0.68 0.951994
Target:  5'- -gCAuCCgaggGAGCAGAA-C-CGGUAAGCg -3'
miRNA:   3'- caGU-GGa---CUUGUCUUaGuGCCAUUCG- -5'
18065 5' -47.6 NC_004680.1 + 57234 0.69 0.947255
Target:  5'- --gACCUGGACAGuguugggaCACGGaccUGAGCa -3'
miRNA:   3'- cagUGGACUUGUCuua-----GUGCC---AUUCG- -5'
18065 5' -47.6 NC_004680.1 + 45241 0.69 0.931233
Target:  5'- uGUCAUCguUGGGCGGAGUCcuauCGGgcgcAAGCg -3'
miRNA:   3'- -CAGUGG--ACUUGUCUUAGu---GCCa---UUCG- -5'
18065 5' -47.6 NC_004680.1 + 945 0.69 0.925283
Target:  5'- gGUCACCgagGAACAGGuGUCAgagcuugcguuCGGUGuGCu -3'
miRNA:   3'- -CAGUGGa--CUUGUCU-UAGU-----------GCCAUuCG- -5'
18065 5' -47.6 NC_004680.1 + 34444 0.71 0.890968
Target:  5'- uUCACCUucGCGGAGUguuucgccgcCGCGGUAgucGGCg -3'
miRNA:   3'- cAGUGGAcuUGUCUUA----------GUGCCAU---UCG- -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.