miRNA display CGI


Results 1 - 18 of 18 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
13147 3' -45.8 NC_003401.1 + 113133 0.66 0.99994
Target:  5'- ---cGCGGUucacCGCCAACAACAa----- -3'
miRNA:   3'- caaaCGCCA----GUGGUUGUUGUgauaac -5'
13147 3' -45.8 NC_003401.1 + 32769 0.66 0.99992
Target:  5'- ---gGgGGUCAUgGguguuggaaaaACAACGCUAUUGa -3'
miRNA:   3'- caaaCgCCAGUGgU-----------UGUUGUGAUAAC- -5'
13147 3' -45.8 NC_003401.1 + 118822 0.66 0.99991
Target:  5'- -gUUGCGGgggucauacggccCACCGGCGACACc---- -3'
miRNA:   3'- caAACGCCa------------GUGGUUGUUGUGauaac -5'
13147 3' -45.8 NC_003401.1 + 78228 0.66 0.99989
Target:  5'- ---gGCGG-CGCCGGCAggcacaccugaaaGCACUGUc- -3'
miRNA:   3'- caaaCGCCaGUGGUUGU-------------UGUGAUAac -5'
13147 3' -45.8 NC_003401.1 + 130772 0.67 0.999757
Target:  5'- -cUUGUGGg-ACCAACAuggauagGCACUGUUa -3'
miRNA:   3'- caAACGCCagUGGUUGU-------UGUGAUAAc -5'
13147 3' -45.8 NC_003401.1 + 106346 0.67 0.999695
Target:  5'- uGUUUGauGUUACCGACAGCGUUuUUGg -3'
miRNA:   3'- -CAAACgcCAGUGGUUGUUGUGAuAAC- -5'
13147 3' -45.8 NC_003401.1 + 113215 0.68 0.999509
Target:  5'- ---gGCGuucuacguUCACgAACAACACUGUUGa -3'
miRNA:   3'- caaaCGCc-------AGUGgUUGUUGUGAUAAC- -5'
13147 3' -45.8 NC_003401.1 + 23699 0.68 0.999382
Target:  5'- ---gGCGG--ACCGGCAGCGCcgGUUGg -3'
miRNA:   3'- caaaCGCCagUGGUUGUUGUGa-UAAC- -5'
13147 3' -45.8 NC_003401.1 + 119624 0.68 0.999212
Target:  5'- --gUGCGGcgcUCGCCGACAcccucuucuaccuACACUAg-- -3'
miRNA:   3'- caaACGCC---AGUGGUUGU-------------UGUGAUaac -5'
13147 3' -45.8 NC_003401.1 + 20407 0.68 0.999045
Target:  5'- ---cGCGGUUGCCGGCc-CACUGggGg -3'
miRNA:   3'- caaaCGCCAGUGGUUGuuGUGAUaaC- -5'
13147 3' -45.8 NC_003401.1 + 122542 0.68 0.999045
Target:  5'- ---cGCGGuUCGCCGGCGACAa----- -3'
miRNA:   3'- caaaCGCC-AGUGGUUGUUGUgauaac -5'
13147 3' -45.8 NC_003401.1 + 21613 0.69 0.998559
Target:  5'- ---cGUGGUCGCCG-CGGCACg---- -3'
miRNA:   3'- caaaCGCCAGUGGUuGUUGUGauaac -5'
13147 3' -45.8 NC_003401.1 + 89328 0.69 0.997403
Target:  5'- ----cCGGUCACCcguucccGGCGACACUGUUc -3'
miRNA:   3'- caaacGCCAGUGG-------UUGUUGUGAUAAc -5'
13147 3' -45.8 NC_003401.1 + 108363 0.71 0.99309
Target:  5'- --gUGCGuGcUCGCCAACAACGCg---- -3'
miRNA:   3'- caaACGC-C-AGUGGUUGUUGUGauaac -5'
13147 3' -45.8 NC_003401.1 + 77134 0.71 0.991979
Target:  5'- --aUGCGGUCAuCCGGaaagaAACGCUGUa- -3'
miRNA:   3'- caaACGCCAGU-GGUUg----UUGUGAUAac -5'
13147 3' -45.8 NC_003401.1 + 1789 0.76 0.895079
Target:  5'- ---aGCGGUCAUCAACggUACUAc-- -3'
miRNA:   3'- caaaCGCCAGUGGUUGuuGUGAUaac -5'
13147 3' -45.8 NC_003401.1 + 126857 0.77 0.864134
Target:  5'- ---gGCGGUCACCAACAucAUGCUAg-- -3'
miRNA:   3'- caaaCGCCAGUGGUUGU--UGUGAUaac -5'
13147 3' -45.8 NC_003401.1 + 113414 1.1 0.02182
Target:  5'- aGUUUGCGGUCACCAACAACACUAUUGu -3'
miRNA:   3'- -CAAACGCCAGUGGUUGUUGUGAUAAC- -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.