miRNA display CGI


Results 1 - 11 of 11 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
27335 3' -53.4 NC_005857.1 + 9957 0.66 0.764687
Target:  5'- -uCAGCGCCUGG-CUGAGAccaaccacggAUGGCUu -3'
miRNA:   3'- uuGUCGCGGACCuGGCUUUa---------UGUCGG- -5'
27335 3' -53.4 NC_005857.1 + 21995 0.66 0.743419
Target:  5'- uGCAGCGUCUGcagaGCCGcugcguCAGCCu -3'
miRNA:   3'- uUGUCGCGGACc---UGGCuuuau-GUCGG- -5'
27335 3' -53.4 NC_005857.1 + 34522 0.67 0.720574
Target:  5'- uGGCGGUaccggagGCCUGGGCgGAGAacgcGCuGCCa -3'
miRNA:   3'- -UUGUCG-------CGGACCUGgCUUUa---UGuCGG- -5'
27335 3' -53.4 NC_005857.1 + 12621 0.69 0.597909
Target:  5'- aAACAGUuCCUGGAUCGucaugGCGGCa -3'
miRNA:   3'- -UUGUCGcGGACCUGGCuuua-UGUCGg -5'
27335 3' -53.4 NC_005857.1 + 9657 0.69 0.58663
Target:  5'- cGACAGCGCCagcguucgGGucgcauCCGGGAgcgucguuccUGCGGCCu -3'
miRNA:   3'- -UUGUCGCGGa-------CCu-----GGCUUU----------AUGUCGG- -5'
27335 3' -53.4 NC_005857.1 + 15769 0.7 0.520113
Target:  5'- uGGCGGUGCCUGGcagaccguGCUGGAA-ACGGCg -3'
miRNA:   3'- -UUGUCGCGGACC--------UGGCUUUaUGUCGg -5'
27335 3' -53.4 NC_005857.1 + 4853 0.71 0.48163
Target:  5'- -uCAGCGCCaaaaUGGAUCGuAuggaggcgacugaacGUGCAGCCg -3'
miRNA:   3'- uuGUCGCGG----ACCUGGCuU---------------UAUGUCGG- -5'
27335 3' -53.4 NC_005857.1 + 46295 0.71 0.456756
Target:  5'- aAACAGUGCCUGcagcGCC-AGAUACuGCCg -3'
miRNA:   3'- -UUGUCGCGGACc---UGGcUUUAUGuCGG- -5'
27335 3' -53.4 NC_005857.1 + 9408 0.72 0.416899
Target:  5'- gGAUAGCGCCUGG-CC---AUACuGCCu -3'
miRNA:   3'- -UUGUCGCGGACCuGGcuuUAUGuCGG- -5'
27335 3' -53.4 NC_005857.1 + 21783 0.73 0.343925
Target:  5'- cAUGGCGCCUGcGCCGAGAUA-AGCUg -3'
miRNA:   3'- uUGUCGCGGACcUGGCUUUAUgUCGG- -5'
27335 3' -53.4 NC_005857.1 + 4549 1.09 0.001241
Target:  5'- aAACAGCGCCUGGACCGAAAUACAGCCc -3'
miRNA:   3'- -UUGUCGCGGACCUGGCUUUAUGUCGG- -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.