miRNA display CGI


Results 1 - 20 of 24 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
12484 3' -59.3 NC_003324.1 + 50279 1.05 0.00068
Target:  5'- uGAUGCGCCGCCGGUCGACGGCAAGAAg -3'
miRNA:   3'- -CUACGCGGCGGCCAGCUGCCGUUCUU- -5'
12484 3' -59.3 NC_003324.1 + 53285 0.77 0.092935
Target:  5'- --cGCGcCCGCCGGUCG-CGGCuuGAGAAa -3'
miRNA:   3'- cuaCGC-GGCGGCCAGCuGCCG--UUCUU- -5'
12484 3' -59.3 NC_003324.1 + 14665 0.74 0.160997
Target:  5'- -cUGCGCCGCCGGccgcuugCGcCGGCAGGc- -3'
miRNA:   3'- cuACGCGGCGGCCa------GCuGCCGUUCuu -5'
12484 3' -59.3 NC_003324.1 + 36527 0.73 0.174458
Target:  5'- --aGCGCCGCgGGcgCGACGGCAu--- -3'
miRNA:   3'- cuaCGCGGCGgCCa-GCUGCCGUucuu -5'
12484 3' -59.3 NC_003324.1 + 56202 0.73 0.188913
Target:  5'- cGAUGUGUUcCgGGUUGGCGGCGAGAAc -3'
miRNA:   3'- -CUACGCGGcGgCCAGCUGCCGUUCUU- -5'
12484 3' -59.3 NC_003324.1 + 56298 0.71 0.244886
Target:  5'- gGAUGuCGCCGCCGaUCGAgcgauaGGCGAGGc -3'
miRNA:   3'- -CUAC-GCGGCGGCcAGCUg-----CCGUUCUu -5'
12484 3' -59.3 NC_003324.1 + 31245 0.7 0.289649
Target:  5'- --aGCGCCGCCGGcCGcacugcgcguuuuuGCGGCGGcGAc -3'
miRNA:   3'- cuaCGCGGCGGCCaGC--------------UGCCGUU-CUu -5'
12484 3' -59.3 NC_003324.1 + 42498 0.69 0.337367
Target:  5'- gGGUGCGCUuCCGGUCcccACGGCAAa-- -3'
miRNA:   3'- -CUACGCGGcGGCCAGc--UGCCGUUcuu -5'
12484 3' -59.3 NC_003324.1 + 1084 0.69 0.337367
Target:  5'- -cUGCGguaCCGCU--UCGACGGCAAGGAg -3'
miRNA:   3'- cuACGC---GGCGGccAGCUGCCGUUCUU- -5'
12484 3' -59.3 NC_003324.1 + 54813 0.68 0.353667
Target:  5'- --cGCGCCGUucgCGGUgaGAcCGGCAGGGAg -3'
miRNA:   3'- cuaCGCGGCG---GCCAg-CU-GCCGUUCUU- -5'
12484 3' -59.3 NC_003324.1 + 38356 0.68 0.361182
Target:  5'- cGggGCGgCGCUGGUCGccgucguGCGGgAGGAAg -3'
miRNA:   3'- -CuaCGCgGCGGCCAGC-------UGCCgUUCUU- -5'
12484 3' -59.3 NC_003324.1 + 13167 0.68 0.370516
Target:  5'- -cUGCGUCGgcggCGGUCGGCGGCGGcGGu -3'
miRNA:   3'- cuACGCGGCg---GCCAGCUGCCGUU-CUu -5'
12484 3' -59.3 NC_003324.1 + 8264 0.68 0.370516
Target:  5'- --cGCGCCGCCGGgcagUGA--GCAGGGAc -3'
miRNA:   3'- cuaCGCGGCGGCCa---GCUgcCGUUCUU- -5'
12484 3' -59.3 NC_003324.1 + 43177 0.67 0.396798
Target:  5'- uAUGC-CCGCUGG-CgGAUGGCGAGAc -3'
miRNA:   3'- cUACGcGGCGGCCaG-CUGCCGUUCUu -5'
12484 3' -59.3 NC_003324.1 + 15206 0.67 0.424249
Target:  5'- --cGUGgCGCCGuGUCGACGcCGAGAc -3'
miRNA:   3'- cuaCGCgGCGGC-CAGCUGCcGUUCUu -5'
12484 3' -59.3 NC_003324.1 + 49296 0.67 0.432704
Target:  5'- --gGCGUCGCaggcguuCGGaUCGuCGGCAGGAAg -3'
miRNA:   3'- cuaCGCGGCG-------GCC-AGCuGCCGUUCUU- -5'
12484 3' -59.3 NC_003324.1 + 30815 0.67 0.433649
Target:  5'- --aGUGCCcaaCGGUCGAUGGCGucGGAc -3'
miRNA:   3'- cuaCGCGGcg-GCCAGCUGCCGU--UCUu -5'
12484 3' -59.3 NC_003324.1 + 2507 0.66 0.452805
Target:  5'- ----aGCCGCCGGcgUCGGCGGCu---- -3'
miRNA:   3'- cuacgCGGCGGCC--AGCUGCCGuucuu -5'
12484 3' -59.3 NC_003324.1 + 30062 0.66 0.48941
Target:  5'- ---aCGCCGCCGGUCGcgacaccggccgcuGCGGCu---- -3'
miRNA:   3'- cuacGCGGCGGCCAGC--------------UGCCGuucuu -5'
12484 3' -59.3 NC_003324.1 + 4269 0.66 0.49244
Target:  5'- aGAUGCGCCacggcguuuccGCCGGU----GGCAAGAu -3'
miRNA:   3'- -CUACGCGG-----------CGGCCAgcugCCGUUCUu -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.