miRNA display CGI


Results 1 - 17 of 17 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
22335 5' -54.1 NC_005045.1 + 20934 0.66 0.654186
Target:  5'- --gGCCuGUGcuggcuGGCAguacAGGGCUGGAAGa -3'
miRNA:   3'- uugCGGuCAC------UCGU----UCUCGACCUUCg -5'
22335 5' -54.1 NC_005045.1 + 32382 0.66 0.619547
Target:  5'- cAAgGCCGGUGAcguGguAGAccuGCUGGAcgagGGCa -3'
miRNA:   3'- -UUgCGGUCACU---CguUCU---CGACCU----UCG- -5'
22335 5' -54.1 NC_005045.1 + 7384 0.67 0.596496
Target:  5'- gGAUGCCA--GAGCAuGAGCcGGggGg -3'
miRNA:   3'- -UUGCGGUcaCUCGUuCUCGaCCuuCg -5'
22335 5' -54.1 NC_005045.1 + 10810 0.67 0.585015
Target:  5'- aGGCGCaGGUGA---GGAGCUGGAuguGCu -3'
miRNA:   3'- -UUGCGgUCACUcguUCUCGACCUu--CG- -5'
22335 5' -54.1 NC_005045.1 + 28509 0.67 0.585015
Target:  5'- aAGCGCCAGggGAuGCuAGccGGC-GGAAGCg -3'
miRNA:   3'- -UUGCGGUCa-CU-CGuUC--UCGaCCUUCG- -5'
22335 5' -54.1 NC_005045.1 + 39458 0.68 0.550871
Target:  5'- cGAgGCUGGUGuccAGCAuguacuGaAGCUGGAAGCc -3'
miRNA:   3'- -UUgCGGUCAC---UCGUu-----C-UCGACCUUCG- -5'
22335 5' -54.1 NC_005045.1 + 40406 0.68 0.507462
Target:  5'- cACGCCGGUGAcgGCGAGGGUgccuuugcccgccucGGuGGCg -3'
miRNA:   3'- uUGCGGUCACU--CGUUCUCGa--------------CCuUCG- -5'
22335 5' -54.1 NC_005045.1 + 15939 0.69 0.463472
Target:  5'- -cCGCCAGUGGauCAucGAGCUGGAcGCc -3'
miRNA:   3'- uuGCGGUCACUc-GUu-CUCGACCUuCG- -5'
22335 5' -54.1 NC_005045.1 + 662 0.69 0.453045
Target:  5'- cAGCGCCAGgGAGguAGAccaGCacccaGGGAGCg -3'
miRNA:   3'- -UUGCGGUCaCUCguUCU---CGa----CCUUCG- -5'
22335 5' -54.1 NC_005045.1 + 1848 0.7 0.422556
Target:  5'- -cCGCCAGUacgcuaccuGAGCAgcaaAGGGCgacuUGGGAGCc -3'
miRNA:   3'- uuGCGGUCA---------CUCGU----UCUCG----ACCUUCG- -5'
22335 5' -54.1 NC_005045.1 + 42242 0.71 0.378293
Target:  5'- -cCGCCAGgaugcguagaauggGcAGCGAGGGCagGGAAGCc -3'
miRNA:   3'- uuGCGGUCa-------------C-UCGUUCUCGa-CCUUCG- -5'
22335 5' -54.1 NC_005045.1 + 179 0.71 0.378293
Target:  5'- -cCGCCAGgaugcguagaauggGcAGCGAGGGCagGGAAGCc -3'
miRNA:   3'- uuGCGGUCa-------------C-UCGUUCUCGa-CCUUCG- -5'
22335 5' -54.1 NC_005045.1 + 39695 0.71 0.34764
Target:  5'- cACGUC-GUGAGCAucGGcGGCUGGAAGg -3'
miRNA:   3'- uUGCGGuCACUCGU--UC-UCGACCUUCg -5'
22335 5' -54.1 NC_005045.1 + 10673 0.73 0.282707
Target:  5'- cGCGUC-GUGGGCuaccguguGGAGCUGGAAGa -3'
miRNA:   3'- uUGCGGuCACUCGu-------UCUCGACCUUCg -5'
22335 5' -54.1 NC_005045.1 + 24361 0.73 0.268052
Target:  5'- -gUGCCGGUGA---AGAGCUGGAGcGCa -3'
miRNA:   3'- uuGCGGUCACUcguUCUCGACCUU-CG- -5'
22335 5' -54.1 NC_005045.1 + 27738 0.75 0.203839
Target:  5'- -uCGCUGGUGAGCuGGAGCUGaccAAGCa -3'
miRNA:   3'- uuGCGGUCACUCGuUCUCGACc--UUCG- -5'
22335 5' -54.1 NC_005045.1 + 19038 1.09 0.000728
Target:  5'- gAACGCCAGUGAGCAAGAGCUGGAAGCc -3'
miRNA:   3'- -UUGCGGUCACUCGUUCUCGACCUUCG- -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.