miRNA display CGI


Results 1 - 20 of 56 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
13304 3' -57.5 NC_003409.1 + 108990 0.78 0.233986
Target:  5'- --cCCCACGCGCCcggccugcgucCCAGCCGGCGGc -3'
miRNA:   3'- aaaGGGUGUGUGGu----------GGUUGGCCGCCc -5'
13304 3' -57.5 NC_003409.1 + 108926 0.69 0.656268
Target:  5'- --aCCUACACAUCgGCCAgacgcaGCCGGCuccGGGa -3'
miRNA:   3'- aaaGGGUGUGUGG-UGGU------UGGCCG---CCC- -5'
13304 3' -57.5 NC_003409.1 + 110428 0.69 0.666446
Target:  5'- --gCCUACcgACAUCGCCAGaagaGGCGGGa -3'
miRNA:   3'- aaaGGGUG--UGUGGUGGUUgg--CCGCCC- -5'
13304 3' -57.5 NC_003409.1 + 119774 0.66 0.844401
Target:  5'- --aUCCACACuuuauguugGCCgcguGCCAggcGCCGGCGuGGg -3'
miRNA:   3'- aaaGGGUGUG---------UGG----UGGU---UGGCCGC-CC- -5'
13304 3' -57.5 NC_003409.1 + 24705 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -5'
13304 3' -57.5 NC_003409.1 + 24735 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -5'
13304 3' -57.5 NC_003409.1 + 24795 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -5'
13304 3' -57.5 NC_003409.1 + 24825 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -5'
13304 3' -57.5 NC_003409.1 + 87477 0.71 0.564747
Target:  5'- --cCCCGCaaGCGCCuucggcACCGGuuucCCGGCGGGg -3'
miRNA:   3'- aaaGGGUG--UGUGG------UGGUU----GGCCGCCC- -5'
13304 3' -57.5 NC_003409.1 + 63068 0.69 0.656268
Target:  5'- uUUUCCUAUGCACUuCCAGgacaaGGCGGGg -3'
miRNA:   3'- -AAAGGGUGUGUGGuGGUUgg---CCGCCC- -5'
13304 3' -57.5 NC_003409.1 + 24855 0.7 0.584932
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGCa-- -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCGccc -5'
13304 3' -57.5 NC_003409.1 + 49181 0.71 0.534837
Target:  5'- -gUCaCAUGCACCGCCGA-CGGUGGGc -3'
miRNA:   3'- aaAGgGUGUGUGGUGGUUgGCCGCCC- -5'
13304 3' -57.5 NC_003409.1 + 24615 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -5'
13304 3' -57.5 NC_003409.1 + 57056 0.7 0.584932
Target:  5'- aUUCCCAUGCGacaggagCACCAGCUGGCGu- -3'
miRNA:   3'- aAAGGGUGUGUg------GUGGUUGGCCGCcc -5'
13304 3' -57.5 NC_003409.1 + 24645 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -5'
13304 3' -57.5 NC_003409.1 + 131231 0.73 0.42221
Target:  5'- -cUCCCAgGCAgCACCAACgCGGCcacacggcgcGGGg -3'
miRNA:   3'- aaAGGGUgUGUgGUGGUUG-GCCG----------CCC- -5'
13304 3' -57.5 NC_003409.1 + 88637 0.69 0.646071
Target:  5'- -cUCCuCAUcaaaugcaugguACACCgaauACCAGCCaGGCGGGa -3'
miRNA:   3'- aaAGG-GUG------------UGUGG----UGGUUGG-CCGCCC- -5'
13304 3' -57.5 NC_003409.1 + 87276 0.69 0.656268
Target:  5'- cUUCCgGCAcCACggcgugACCAACUGGUGGGu -3'
miRNA:   3'- aAAGGgUGU-GUGg-----UGGUUGGCCGCCC- -5'
13304 3' -57.5 NC_003409.1 + 24675 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -5'
13304 3' -57.5 NC_003409.1 + 24765 0.74 0.387924
Target:  5'- -aUCCCgGCGCGCCACCcuccCCGGaGGGg -3'
miRNA:   3'- aaAGGG-UGUGUGGUGGuu--GGCCgCCC- -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.