miRNA display CGI


Results 1 - 20 of 37 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
11516 3' -58.6 NC_003085.1 + 1561 1.13 0.000217
Target:  5'- gCCGUGCGCGUCGCCUGCAGUUGCGGCg -3'
miRNA:   3'- -GGCACGCGCAGCGGACGUCAACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 26708 0.68 0.391692
Target:  5'- cUCGaGCGCG-CGCaggGCGGUgacggcGCGGCg -3'
miRNA:   3'- -GGCaCGCGCaGCGga-CGUCAa-----CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 40334 0.68 0.400616
Target:  5'- gCUG-GCGCGU-GCCU-CAGUggGCGGUg -3'
miRNA:   3'- -GGCaCGCGCAgCGGAcGUCAa-CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 37974 0.68 0.418847
Target:  5'- -gGUGCGCcaugucagCGUCUGCGGcgGUGGUg -3'
miRNA:   3'- ggCACGCGca------GCGGACGUCaaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 45822 0.68 0.427214
Target:  5'- aCCaGUGCaGCGUCccucucgGCCaGcCAGUcGCGGCg -3'
miRNA:   3'- -GG-CACG-CGCAG-------CGGaC-GUCAaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 20653 0.68 0.427214
Target:  5'- aCGUGgcuCGCGUCGCgucggagUUGCuGgaGCGGCu -3'
miRNA:   3'- gGCAC---GCGCAGCG-------GACGuCaaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 46894 0.68 0.42815
Target:  5'- cCCGUGgGCuugugaagGUCGUCaccGCGGcagGCGGCa -3'
miRNA:   3'- -GGCACgCG--------CAGCGGa--CGUCaa-CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 32132 0.66 0.537637
Target:  5'- -gGUGCGaCGggggCGgCUGguGgcGCGGUg -3'
miRNA:   3'- ggCACGC-GCa---GCgGACguCaaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 25572 0.66 0.54812
Target:  5'- gCGgGCGCGgacCGCCuuuucgUGCAGUU-UGGCa -3'
miRNA:   3'- gGCaCGCGCa--GCGG------ACGUCAAcGCCG- -5'
11516 3' -58.6 NC_003085.1 + 12296 0.69 0.374237
Target:  5'- aCG-GCGCgGUgGUCcGCugGGUUGCGGCg -3'
miRNA:   3'- gGCaCGCG-CAgCGGaCG--UCAACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 36443 0.69 0.36571
Target:  5'- aCCGUGCggaggGCGgCGCCUcauggcgagGUAGUgccacugGCGGCu -3'
miRNA:   3'- -GGCACG-----CGCaGCGGA---------CGUCAa------CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 41021 0.74 0.158965
Target:  5'- gCCGUGgGCGUCGCUgGCGuccuccuggGCGGCu -3'
miRNA:   3'- -GGCACgCGCAGCGGaCGUcaa------CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 42730 0.71 0.254239
Target:  5'- gCGUGgGCGUCGgggcgaUGCGGgcGCGGUg -3'
miRNA:   3'- gGCACgCGCAGCgg----ACGUCaaCGCCG- -5'
11516 3' -58.6 NC_003085.1 + 756 0.71 0.260716
Target:  5'- gCCGgaGUuCGUCGCC-GCAGUugcuUGCGGCc -3'
miRNA:   3'- -GGCa-CGcGCAGCGGaCGUCA----ACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 23004 0.71 0.28095
Target:  5'- -gGUGCGCG-CGCC-GCAGUccUGGCg -3'
miRNA:   3'- ggCACGCGCaGCGGaCGUCAacGCCG- -5'
11516 3' -58.6 NC_003085.1 + 28112 0.7 0.295121
Target:  5'- ---aGCGCG-CGCCagaagcaggUGCAGUugcUGCGGCc -3'
miRNA:   3'- ggcaCGCGCaGCGG---------ACGUCA---ACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 25163 0.7 0.302412
Target:  5'- gCCG-GCGacCGUgGCCUGguGgcgGUGGCg -3'
miRNA:   3'- -GGCaCGC--GCAgCGGACguCaa-CGCCG- -5'
11516 3' -58.6 NC_003085.1 + 20944 0.69 0.349061
Target:  5'- gCCccGCGCG-CGUCUGCAcgaggUGCGGUg -3'
miRNA:   3'- -GGcaCGCGCaGCGGACGUca---ACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 32941 0.69 0.364864
Target:  5'- aCCG-GCucaacagGCG-CGCCUGCcauGcUUGCGGCg -3'
miRNA:   3'- -GGCaCG-------CGCaGCGGACGu--C-AACGCCG- -5'
11516 3' -58.6 NC_003085.1 + 8571 0.72 0.227305
Target:  5'- -gGUGCGCGUCGUacugGCGGgccagcgccucgGCGGCc -3'
miRNA:   3'- ggCACGCGCAGCGga--CGUCaa----------CGCCG- -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.