miRNA display CGI


Results 1 - 16 of 16 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
30698 3' -56.4 NC_006552.1 + 30317 0.67 0.602761
Target:  5'- aGGuCCACcgggAAGCGGGCUugguuGACgCGCAGu -3'
miRNA:   3'- aUCuGGUG----UUCGCCCGG-----UUGaGCGUC- -5'
30698 3' -56.4 NC_006552.1 + 13343 0.67 0.602761
Target:  5'- -uGGCCuucgaGCAAGCGGagcGCCAGCg-GCAGg -3'
miRNA:   3'- auCUGG-----UGUUCGCC---CGGUUGagCGUC- -5'
30698 3' -56.4 NC_006552.1 + 40848 0.67 0.591842
Target:  5'- aAGGCCACAccauGGCaacgaaaGGCCGcauACUCGCAu -3'
miRNA:   3'- aUCUGGUGU----UCGc------CCGGU---UGAGCGUc -5'
30698 3' -56.4 NC_006552.1 + 40471 0.67 0.590752
Target:  5'- gUAGGCCACcAGCcggcgccGGGCCuGCUCGg-- -3'
miRNA:   3'- -AUCUGGUGuUCG-------CCCGGuUGAGCguc -5'
30698 3' -56.4 NC_006552.1 + 25835 0.67 0.566873
Target:  5'- aUAGGCCgGCAgcGGUacggaaacuugaacGGGuCCGACUCGCGGc -3'
miRNA:   3'- -AUCUGG-UGU--UCG--------------CCC-GGUUGAGCGUC- -5'
30698 3' -56.4 NC_006552.1 + 56933 0.68 0.537921
Target:  5'- cAGGCUACGgucgguGGCGGcGCgGaACUCGCGGu -3'
miRNA:   3'- aUCUGGUGU------UCGCC-CGgU-UGAGCGUC- -5'
30698 3' -56.4 NC_006552.1 + 15105 0.68 0.527324
Target:  5'- --aACCGCAcGCGGGCgGAacgCGCAGc -3'
miRNA:   3'- aucUGGUGUuCGCCCGgUUga-GCGUC- -5'
30698 3' -56.4 NC_006552.1 + 31827 0.68 0.516806
Target:  5'- aGGGCCAgCA--CGGGCCGGCccuUCGUAGg -3'
miRNA:   3'- aUCUGGU-GUucGCCCGGUUG---AGCGUC- -5'
30698 3' -56.4 NC_006552.1 + 5600 0.68 0.516806
Target:  5'- cUGGACCcggcuCAAGCGcaGGCCGcCUgGCAGa -3'
miRNA:   3'- -AUCUGGu----GUUCGC--CCGGUuGAgCGUC- -5'
30698 3' -56.4 NC_006552.1 + 52265 0.69 0.496032
Target:  5'- --cGCCACAAGCucGGCCAGCgCGCuGg -3'
miRNA:   3'- aucUGGUGUUCGc-CCGGUUGaGCGuC- -5'
30698 3' -56.4 NC_006552.1 + 15710 0.69 0.465606
Target:  5'- -uGACCGgugUGAGCGGGCCAAa-CGCAu -3'
miRNA:   3'- auCUGGU---GUUCGCCCGGUUgaGCGUc -5'
30698 3' -56.4 NC_006552.1 + 31661 0.7 0.398669
Target:  5'- cUGGugCGCAGGCGcgcagcGGCCGACagcaGCAGg -3'
miRNA:   3'- -AUCugGUGUUCGC------CCGGUUGag--CGUC- -5'
30698 3' -56.4 NC_006552.1 + 1076 0.71 0.389619
Target:  5'- -cGACCGCAAGCuGuGCCuGAUUCGCAa -3'
miRNA:   3'- auCUGGUGUUCGcC-CGG-UUGAGCGUc -5'
30698 3' -56.4 NC_006552.1 + 36385 0.71 0.354792
Target:  5'- -cGACCAgGguGGCGGGuUCAACUCGCu- -3'
miRNA:   3'- auCUGGUgU--UCGCCC-GGUUGAGCGuc -5'
30698 3' -56.4 NC_006552.1 + 29548 0.73 0.299288
Target:  5'- gUAGAUCGCAuucaGGUGGGC--GCUCGCGGc -3'
miRNA:   3'- -AUCUGGUGU----UCGCCCGguUGAGCGUC- -5'
30698 3' -56.4 NC_006552.1 + 4819 1.07 0.001063
Target:  5'- cUAGACCACAAGCGGGCCAACUCGCAGa -3'
miRNA:   3'- -AUCUGGUGUUCGCCCGGUUGAGCGUC- -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.