miRNA display CGI


Results 1 - 20 of 33 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
11861 3' -57.3 NC_003266.2 + 3641 0.69 0.316762
Target:  5'- --uGCCGCcagCGCCGuGCGCGGAAugGCCa -3'
miRNA:   3'- gccUGGCGa--GCGGUcCGCGCUUU--UGG- -5'
11861 3' -57.3 NC_003266.2 + 3833 0.66 0.501614
Target:  5'- gCGGGCCGCggUUGCCAcG-GUGAAAuCCa -3'
miRNA:   3'- -GCCUGGCG--AGCGGUcCgCGCUUUuGG- -5'
11861 3' -57.3 NC_003266.2 + 3840 0.69 0.340974
Target:  5'- uGGGUCaGCUCGcCCAGGCGCugggucAAGGCCu -3'
miRNA:   3'- gCCUGG-CGAGC-GGUCCGCGc-----UUUUGG- -5'
11861 3' -57.3 NC_003266.2 + 4958 0.68 0.393305
Target:  5'- aGGAgcuCCuCUCGCUGGGCG-GAGAGCg -3'
miRNA:   3'- gCCU---GGcGAGCGGUCCGCgCUUUUGg -5'
11861 3' -57.3 NC_003266.2 + 5308 0.72 0.226895
Target:  5'- uCGG-CCGCgUgGCCuuuGGCGCGGAGcuuACCu -3'
miRNA:   3'- -GCCuGGCG-AgCGGu--CCGCGCUUU---UGG- -5'
11861 3' -57.3 NC_003266.2 + 5493 0.72 0.226895
Target:  5'- gCGaGACCGUcugCGCCcacugcGGCGCGGAcGCCu -3'
miRNA:   3'- -GC-CUGGCGa--GCGGu-----CCGCGCUUuUGG- -5'
11861 3' -57.3 NC_003266.2 + 7099 0.71 0.245513
Target:  5'- aGGGCUGCUgCGCCuacaAGGC-CGuuAACCa -3'
miRNA:   3'- gCCUGGCGA-GCGG----UCCGcGCuuUUGG- -5'
11861 3' -57.3 NC_003266.2 + 8411 0.66 0.521673
Target:  5'- aGGA-CGCgCGCCGGGCgguagggGCGGcucgGGACCc -3'
miRNA:   3'- gCCUgGCGaGCGGUCCG-------CGCU----UUUGG- -5'
11861 3' -57.3 NC_003266.2 + 8796 0.75 0.146845
Target:  5'- gCGGccACCGUggagcgCGCCGGcCGCGGAGACCu -3'
miRNA:   3'- -GCC--UGGCGa-----GCGGUCcGCGCUUUUGG- -5'
11861 3' -57.3 NC_003266.2 + 9237 0.67 0.470661
Target:  5'- gGGGCCuGCgUCGCCGgcGGCGCacGGGCa -3'
miRNA:   3'- gCCUGG-CG-AGCGGU--CCGCGcuUUUGg -5'
11861 3' -57.3 NC_003266.2 + 9355 0.68 0.366496
Target:  5'- cCGaGACCauGCgaCGCC-GGCGCGGcgAGACCa -3'
miRNA:   3'- -GC-CUGG--CGa-GCGGuCCGCGCU--UUUGG- -5'
11861 3' -57.3 NC_003266.2 + 9760 0.69 0.340974
Target:  5'- aGGACC--UgGCCAGGUGUcAGGACCa -3'
miRNA:   3'- gCCUGGcgAgCGGUCCGCGcUUUUGG- -5'
11861 3' -57.3 NC_003266.2 + 11012 0.72 0.23543
Target:  5'- gCGGguGCCGCUCcggcgacgacgcccCCAGGCGCGccAGCCc -3'
miRNA:   3'- -GCC--UGGCGAGc-------------GGUCCGCGCuuUUGG- -5'
11861 3' -57.3 NC_003266.2 + 11699 0.66 0.522738
Target:  5'- aGGaugcGCCGCgcgguaagCGCCAgcaggcGGCGCGAgcuGAGCg -3'
miRNA:   3'- gCC----UGGCGa-------GCGGU------CCGCGCU---UUUGg -5'
11861 3' -57.3 NC_003266.2 + 11822 0.69 0.361288
Target:  5'- gCGGACCugcacuggcagcccaGC-CGCCGGGUcuUGGAAGCCg -3'
miRNA:   3'- -GCCUGG---------------CGaGCGGUCCGc-GCUUUUGG- -5'
11861 3' -57.3 NC_003266.2 + 12292 0.66 0.512131
Target:  5'- uGGACCGCauggUGaCCGacGuGCGCG-AAGCCg -3'
miRNA:   3'- gCCUGGCGa---GC-GGU--C-CGCGCuUUUGG- -5'
11861 3' -57.3 NC_003266.2 + 12578 0.66 0.491194
Target:  5'- gGGACUGUggggCGUgCAGGCuccgguCGggGACCg -3'
miRNA:   3'- gCCUGGCGa---GCG-GUCCGc-----GCuuUUGG- -5'
11861 3' -57.3 NC_003266.2 + 12809 0.67 0.430968
Target:  5'- aGGuCUGCUCGuCCAcGUGCGccuGGCCa -3'
miRNA:   3'- gCCuGGCGAGC-GGUcCGCGCuu-UUGG- -5'
11861 3' -57.3 NC_003266.2 + 13583 0.69 0.357844
Target:  5'- --cGCCGCUgGCacgaCAGGCaGCGggGACUg -3'
miRNA:   3'- gccUGGCGAgCG----GUCCG-CGCuuUUGG- -5'
11861 3' -57.3 NC_003266.2 + 15766 0.69 0.348494
Target:  5'- cCGGgcgaugcGCCGC-CGCCGgcucuuGGCGCGGGcguACCg -3'
miRNA:   3'- -GCC-------UGGCGaGCGGU------CCGCGCUUu--UGG- -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.