miRNA display CGI


Results 1 - 15 of 15 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
29319 3' -55.1 NC_006150.1 + 108842 0.66 0.971448
Target:  5'- -cUCGACGGAuggugguGCG-GGCGUuggcUCUCgGCg -3'
miRNA:   3'- acAGCUGUCU-------CGCaCCGCA----AGAGgUG- -5'
29319 3' -55.1 NC_006150.1 + 38909 0.66 0.968867
Target:  5'- aGUCGAaau-GUGUGaGCGUUCUCgCAUu -3'
miRNA:   3'- aCAGCUgucuCGCAC-CGCAAGAG-GUG- -5'
29319 3' -55.1 NC_006150.1 + 199691 0.66 0.963878
Target:  5'- cUGUCGGaaGGAGCGcUuuccauguuguucucGGCGUUCUCCuGCu -3'
miRNA:   3'- -ACAGCUg-UCUCGC-A---------------CCGCAAGAGG-UG- -5'
29319 3' -55.1 NC_006150.1 + 69389 0.66 0.955387
Target:  5'- aUGUUGACGGAGCGcaccaccacGGUGgagUCgcacgUCCGCg -3'
miRNA:   3'- -ACAGCUGUCUCGCa--------CCGCa--AG-----AGGUG- -5'
29319 3' -55.1 NC_006150.1 + 90623 0.66 0.955387
Target:  5'- aGUCaGACAGAGUGcucagGGCGgagauggCCGCg -3'
miRNA:   3'- aCAG-CUGUCUCGCa----CCGCaaga---GGUG- -5'
29319 3' -55.1 NC_006150.1 + 56455 0.68 0.906065
Target:  5'- cGUCGACGaugcgaucccGGGCGgcccagauagaUGGCGUUacaUUCCACa -3'
miRNA:   3'- aCAGCUGU----------CUCGC-----------ACCGCAA---GAGGUG- -5'
29319 3' -55.1 NC_006150.1 + 119063 0.69 0.893453
Target:  5'- cGcCGACgccauGGAGCGUGGCcucaUCCACu -3'
miRNA:   3'- aCaGCUG-----UCUCGCACCGcaagAGGUG- -5'
29319 3' -55.1 NC_006150.1 + 220740 0.7 0.850442
Target:  5'- gUGUCGAgAGAagggagaguuaGCGUGGUGggagCUCCGg -3'
miRNA:   3'- -ACAGCUgUCU-----------CGCACCGCaa--GAGGUg -5'
29319 3' -55.1 NC_006150.1 + 215281 0.7 0.845741
Target:  5'- gGUCaGGCguuucgcuaucccauAGGGaCGUGGCGgcgagUCUCCGCa -3'
miRNA:   3'- aCAG-CUG---------------UCUC-GCACCGCa----AGAGGUG- -5'
29319 3' -55.1 NC_006150.1 + 45881 0.7 0.84257
Target:  5'- aGUUGAUAGAuguguaugccuaGCGUGGauuugUCUCCGCa -3'
miRNA:   3'- aCAGCUGUCU------------CGCACCgca--AGAGGUG- -5'
29319 3' -55.1 NC_006150.1 + 218439 0.7 0.817871
Target:  5'- uUGUUGGCAGAaucuGCuagGUGGCGUUUguucuuauuUCCACa -3'
miRNA:   3'- -ACAGCUGUCU----CG---CACCGCAAG---------AGGUG- -5'
29319 3' -55.1 NC_006150.1 + 129036 0.71 0.77355
Target:  5'- aGUCGgggcagagGCGGAGCGUa-CGUUCUCUACa -3'
miRNA:   3'- aCAGC--------UGUCUCGCAccGCAAGAGGUG- -5'
29319 3' -55.1 NC_006150.1 + 64067 0.73 0.706619
Target:  5'- cGUCGAUgucGAGCG-GGUGUUCUUCAa -3'
miRNA:   3'- aCAGCUGu--CUCGCaCCGCAAGAGGUg -5'
29319 3' -55.1 NC_006150.1 + 69274 0.78 0.443274
Target:  5'- --cCGACAGAGCGUGGCGcagUUCUCgaGCu -3'
miRNA:   3'- acaGCUGUCUCGCACCGC---AAGAGg-UG- -5'
29319 3' -55.1 NC_006150.1 + 118729 1.09 0.005419
Target:  5'- cUGUCGACAGAGCGUGGCGUUCUCCACc -3'
miRNA:   3'- -ACAGCUGUCUCGCACCGCAAGAGGUG- -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.