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
11596 3' -56.7 NC_003085.1 + 649 0.68 0.477884
Target:  5'- gUCGAGGCGcucgagcaccgcccGGaCGUCGCcGGCCACc- -3'
miRNA:   3'- gAGUUCCGU--------------CC-GCAGCGuCUGGUGug -5'
11596 3' -56.7 NC_003085.1 + 3931 0.69 0.421457
Target:  5'- ---cAGGCucGCGUCGCGGGCCuGCAa -3'
miRNA:   3'- gaguUCCGucCGCAGCGUCUGG-UGUg -5'
11596 3' -56.7 NC_003085.1 + 7326 0.67 0.533493
Target:  5'- aUCGcGG-AGGCGgcugaggaCGCGGGCUACACg -3'
miRNA:   3'- gAGUuCCgUCCGCa-------GCGUCUGGUGUG- -5'
11596 3' -56.7 NC_003085.1 + 7464 0.67 0.501691
Target:  5'- ----cGGUGGGCGUCGCGccUCACGCu -3'
miRNA:   3'- gaguuCCGUCCGCAGCGUcuGGUGUG- -5'
11596 3' -56.7 NC_003085.1 + 9683 0.66 0.555089
Target:  5'- gUCGAgcaccGGCuGGCGUCccuGCAGACUggaGCGCc -3'
miRNA:   3'- gAGUU-----CCGuCCGCAG---CGUCUGG---UGUG- -5'
11596 3' -56.7 NC_003085.1 + 10129 0.68 0.460651
Target:  5'- cCUCAc-GCAGGUaUC-CAGGCCGCGCa -3'
miRNA:   3'- -GAGUucCGUCCGcAGcGUCUGGUGUG- -5'
11596 3' -56.7 NC_003085.1 + 12030 0.68 0.450669
Target:  5'- -gCGGGGUuGGCGcUCGCuaGCCGCACu -3'
miRNA:   3'- gaGUUCCGuCCGC-AGCGucUGGUGUG- -5'
11596 3' -56.7 NC_003085.1 + 13360 0.7 0.349458
Target:  5'- -gCGAGGCAGGagagGUgGCuGACCACGu -3'
miRNA:   3'- gaGUUCCGUCCg---CAgCGuCUGGUGUg -5'
11596 3' -56.7 NC_003085.1 + 14368 0.67 0.491275
Target:  5'- aCUCAacGGGguGaCGUCGCAGAUgGCcCg -3'
miRNA:   3'- -GAGU--UCCguCcGCAGCGUCUGgUGuG- -5'
11596 3' -56.7 NC_003085.1 + 22620 0.68 0.47075
Target:  5'- aUCGAGGguGGCGgggGCAcacGCCugGCg -3'
miRNA:   3'- gAGUUCCguCCGCag-CGUc--UGGugUG- -5'
11596 3' -56.7 NC_003085.1 + 23362 0.7 0.349458
Target:  5'- aUgGAGGCAGccGUGUCcCAGGCCAUGCg -3'
miRNA:   3'- gAgUUCCGUC--CGCAGcGUCUGGUGUG- -5'
11596 3' -56.7 NC_003085.1 + 23642 0.67 0.501691
Target:  5'- uUCA--GCAGcGCGa-GCAGGCCGCGCa -3'
miRNA:   3'- gAGUucCGUC-CGCagCGUCUGGUGUG- -5'
11596 3' -56.7 NC_003085.1 + 24292 0.68 0.431069
Target:  5'- gCUCGAGGCGcGGaugaauGUCGCcgAGGCCAC-Ca -3'
miRNA:   3'- -GAGUUCCGU-CCg-----CAGCG--UCUGGUGuG- -5'
11596 3' -56.7 NC_003085.1 + 25254 0.7 0.375407
Target:  5'- gCUCcgcGGCGGGCGUCGUcGuCgGCGCg -3'
miRNA:   3'- -GAGuu-CCGUCCGCAGCGuCuGgUGUG- -5'
11596 3' -56.7 NC_003085.1 + 25558 0.69 0.393416
Target:  5'- -gCGGGcagaaGCAGGCGggCGCGGACCGCc- -3'
miRNA:   3'- gaGUUC-----CGUCCGCa-GCGUCUGGUGug -5'
11596 3' -56.7 NC_003085.1 + 26082 0.67 0.501691
Target:  5'- -gCAAGGCAcGGUGaCGCAuGGCCugggACACg -3'
miRNA:   3'- gaGUUCCGU-CCGCaGCGU-CUGG----UGUG- -5'
11596 3' -56.7 NC_003085.1 + 31131 0.68 0.467708
Target:  5'- -gUAAGGCAGcGCGUUGCGGcugcccuucggacgGCCAgCGCc -3'
miRNA:   3'- gaGUUCCGUC-CGCAGCGUC--------------UGGU-GUG- -5'
11596 3' -56.7 NC_003085.1 + 32430 0.69 0.402629
Target:  5'- -cCAAGGaGGGCGUCGUuGGACCgaACGCc -3'
miRNA:   3'- gaGUUCCgUCCGCAGCG-UCUGG--UGUG- -5'
11596 3' -56.7 NC_003085.1 + 32472 0.67 0.501691
Target:  5'- uCUCGucGCcgucGGCGUCGCGGGCCcggaGCg -3'
miRNA:   3'- -GAGUucCGu---CCGCAGCGUCUGGug--UG- -5'
11596 3' -56.7 NC_003085.1 + 36143 0.66 0.598961
Target:  5'- -aCAuGGCGGGCucgcugaugaugGUCGCcGACCGCuCg -3'
miRNA:   3'- gaGUuCCGUCCG------------CAGCGuCUGGUGuG- -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.