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
18953 3' -54.7 NC_004683.1 + 21057 0.66 0.749429
Target:  5'- cGGUGaCCAggGCAUCAgaugaccguguAGCCCGcUGCc -3'
miRNA:   3'- -UCGC-GGUaaUGUAGU-----------UCGGGCcACGc -5'
18953 3' -54.7 NC_004683.1 + 12327 0.66 0.749429
Target:  5'- cAGCGCCgg-GCAUCGGcacGCCgGGcGCu -3'
miRNA:   3'- -UCGCGGuaaUGUAGUU---CGGgCCaCGc -5'
18953 3' -54.7 NC_004683.1 + 16097 0.66 0.749429
Target:  5'- cGGCGUCAU--CGUCGAaaccGCCgGcGUGCGg -3'
miRNA:   3'- -UCGCGGUAauGUAGUU----CGGgC-CACGC- -5'
18953 3' -54.7 NC_004683.1 + 45584 0.66 0.749429
Target:  5'- uAGUGCagcgugGCGaCGAGCCgguCGGUGCGg -3'
miRNA:   3'- -UCGCGguaa--UGUaGUUCGG---GCCACGC- -5'
18953 3' -54.7 NC_004683.1 + 40432 0.66 0.728242
Target:  5'- cGGCGUCG----GUCAGGCCCGaG-GCGu -3'
miRNA:   3'- -UCGCGGUaaugUAGUUCGGGC-CaCGC- -5'
18953 3' -54.7 NC_004683.1 + 51711 0.66 0.728242
Target:  5'- cAGCGCg---ACcgCGGGCUCGGggGCGg -3'
miRNA:   3'- -UCGCGguaaUGuaGUUCGGGCCa-CGC- -5'
18953 3' -54.7 NC_004683.1 + 1928 0.66 0.728242
Target:  5'- --gGCCAgagGCuUCGAGCCCuGGUGgCGc -3'
miRNA:   3'- ucgCGGUaa-UGuAGUUCGGG-CCAC-GC- -5'
18953 3' -54.7 NC_004683.1 + 44357 0.66 0.717495
Target:  5'- cGGCGCgGaucgccGCGUCGAGCCgcgucgucuuCGGUGCc -3'
miRNA:   3'- -UCGCGgUaa----UGUAGUUCGG----------GCCACGc -5'
18953 3' -54.7 NC_004683.1 + 25364 0.66 0.717495
Target:  5'- uGCGCCug-----CAGGCCCGGcagcGCGg -3'
miRNA:   3'- uCGCGGuaauguaGUUCGGGCCa---CGC- -5'
18953 3' -54.7 NC_004683.1 + 42581 0.66 0.717495
Target:  5'- cGCGCCGcgGCgGUCGGGgCCGGU-CGu -3'
miRNA:   3'- uCGCGGUaaUG-UAGUUCgGGCCAcGC- -5'
18953 3' -54.7 NC_004683.1 + 4954 0.66 0.717495
Target:  5'- cGGCGCaugcGCGUCGAGgCCGGUuccucGCa -3'
miRNA:   3'- -UCGCGguaaUGUAGUUCgGGCCA-----CGc -5'
18953 3' -54.7 NC_004683.1 + 23055 0.67 0.695756
Target:  5'- cGGUGUCGgccUGC-UCGgcGGCCUGGUGCu -3'
miRNA:   3'- -UCGCGGUa--AUGuAGU--UCGGGCCACGc -5'
18953 3' -54.7 NC_004683.1 + 47084 0.67 0.695756
Target:  5'- cGCGCCG--GC-UCGGuaCCGGUGUGg -3'
miRNA:   3'- uCGCGGUaaUGuAGUUcgGGCCACGC- -5'
18953 3' -54.7 NC_004683.1 + 41723 0.67 0.684786
Target:  5'- gAGCGCCAUUGCGagagugccauguUCGccgcgcGCCCGGauccgGCu -3'
miRNA:   3'- -UCGCGGUAAUGU------------AGUu-----CGGGCCa----CGc -5'
18953 3' -54.7 NC_004683.1 + 25116 0.67 0.684786
Target:  5'- cGGCGgCGUUGCcgGUCcuGGCcgccgucaCCGGUGCGg -3'
miRNA:   3'- -UCGCgGUAAUG--UAGu-UCG--------GGCCACGC- -5'
18953 3' -54.7 NC_004683.1 + 17169 0.67 0.673765
Target:  5'- cAGCGCCGcuccgACAU-GGGCCCGaUGCa -3'
miRNA:   3'- -UCGCGGUaa---UGUAgUUCGGGCcACGc -5'
18953 3' -54.7 NC_004683.1 + 4830 0.67 0.673765
Target:  5'- gGGCGUgGaccuCGUC-GGCCCGGUuGCGg -3'
miRNA:   3'- -UCGCGgUaau-GUAGuUCGGGCCA-CGC- -5'
18953 3' -54.7 NC_004683.1 + 24704 0.67 0.673765
Target:  5'- gGGCGCCGgugACGUCGAgguaggagaauGCCgGGUcGCc -3'
miRNA:   3'- -UCGCGGUaa-UGUAGUU-----------CGGgCCA-CGc -5'
18953 3' -54.7 NC_004683.1 + 24766 0.67 0.662704
Target:  5'- cGCgGCCAUggccucgaugACGUCGGGgUUGGUGCGc -3'
miRNA:   3'- uCG-CGGUAa---------UGUAGUUCgGGCCACGC- -5'
18953 3' -54.7 NC_004683.1 + 12242 0.67 0.662704
Target:  5'- gAGCGCCcg-GCGUgcCGAuGCCCGGcGCu -3'
miRNA:   3'- -UCGCGGuaaUGUA--GUU-CGGGCCaCGc -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.