miRNA display CGI


Results 1 - 18 of 18 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
6990 3' -52.9 NC_001875.2 + 70043 0.66 0.94923
Target:  5'- uUGUGCGGucGCUGCGACGga-CGGg -3'
miRNA:   3'- uACAUGCUucUGACGUUGCacgGCCa -5'
6990 3' -52.9 NC_001875.2 + 74901 0.66 0.94923
Target:  5'- gGUGUACGAgugcgcuauuacGGACaaUGCGAUaaacgugcucaaGUGCCGGc -3'
miRNA:   3'- -UACAUGCU------------UCUG--ACGUUG------------CACGGCCa -5'
6990 3' -52.9 NC_001875.2 + 47931 0.67 0.924092
Target:  5'- -cGUACGu--GCUGCAacagGCGUGCgCGGa -3'
miRNA:   3'- uaCAUGCuucUGACGU----UGCACG-GCCa -5'
6990 3' -52.9 NC_001875.2 + 59425 0.67 0.924092
Target:  5'- uUGU--GGAG-CUGCAcACGUGCCGGc -3'
miRNA:   3'- uACAugCUUCuGACGU-UGCACGGCCa -5'
6990 3' -52.9 NC_001875.2 + 10992 0.67 0.918288
Target:  5'- ---gACGAAGcGCUGCAggcgcGCGUGCCcauGGUg -3'
miRNA:   3'- uacaUGCUUC-UGACGU-----UGCACGG---CCA- -5'
6990 3' -52.9 NC_001875.2 + 97581 0.67 0.917693
Target:  5'- cGUGUgacacgcACGcGGACUGUAacGCGUGCCGuGa -3'
miRNA:   3'- -UACA-------UGCuUCUGACGU--UGCACGGC-Ca -5'
6990 3' -52.9 NC_001875.2 + 70336 0.68 0.89933
Target:  5'- ---cACGcGGACUGCGGCGccgaGCCGGc -3'
miRNA:   3'- uacaUGCuUCUGACGUUGCa---CGGCCa -5'
6990 3' -52.9 NC_001875.2 + 39303 0.68 0.89933
Target:  5'- -aGUGCGc--GCUGCAcacCGUGCCGGc -3'
miRNA:   3'- uaCAUGCuucUGACGUu--GCACGGCCa -5'
6990 3' -52.9 NC_001875.2 + 51939 0.68 0.892503
Target:  5'- -cGUGCGGcgcuacuuuGGGC-GCGACGUGCCGc- -3'
miRNA:   3'- uaCAUGCU---------UCUGaCGUUGCACGGCca -5'
6990 3' -52.9 NC_001875.2 + 103930 0.69 0.870554
Target:  5'- cGUGUaaACGcGGGCUGCGACGgcgGCCuGUu -3'
miRNA:   3'- -UACA--UGCuUCUGACGUUGCa--CGGcCA- -5'
6990 3' -52.9 NC_001875.2 + 102761 0.69 0.862766
Target:  5'- uUGcACGAGcGCUGCAGCGcuucaaaacUGCCGGa -3'
miRNA:   3'- uACaUGCUUcUGACGUUGC---------ACGGCCa -5'
6990 3' -52.9 NC_001875.2 + 7088 0.69 0.862766
Target:  5'- cUGUGCGcAGACaUGCAGCGcgcGCUGGc -3'
miRNA:   3'- uACAUGCuUCUG-ACGUUGCa--CGGCCa -5'
6990 3' -52.9 NC_001875.2 + 75578 0.7 0.810641
Target:  5'- -aGUACGAGGGCgGCAaaguacugcagccGCGcGCCGGc -3'
miRNA:   3'- uaCAUGCUUCUGaCGU-------------UGCaCGGCCa -5'
6990 3' -52.9 NC_001875.2 + 88342 0.71 0.773766
Target:  5'- cUGgaggGCGucaAGGugUGCAGCGUGCaCGGg -3'
miRNA:   3'- uACa---UGC---UUCugACGUUGCACG-GCCa -5'
6990 3' -52.9 NC_001875.2 + 127999 0.71 0.763951
Target:  5'- cAUGUugG-AGGCUGCGGCcGcGCCGGc -3'
miRNA:   3'- -UACAugCuUCUGACGUUG-CaCGGCCa -5'
6990 3' -52.9 NC_001875.2 + 75703 0.75 0.533679
Target:  5'- uUGUGCGAAGACgGCAACGUGUa--- -3'
miRNA:   3'- uACAUGCUUCUGaCGUUGCACGgcca -5'
6990 3' -52.9 NC_001875.2 + 102004 0.77 0.434966
Target:  5'- -cGUGCGcggcggcgguGGACUGCAGCGUGCCGu- -3'
miRNA:   3'- uaCAUGCu---------UCUGACGUUGCACGGCca -5'
6990 3' -52.9 NC_001875.2 + 97851 1.05 0.007784
Target:  5'- cAUGUACGAAGACUGCAACGUGCCGGUc -3'
miRNA:   3'- -UACAUGCUUCUGACGUUGCACGGCCA- -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.