miRNA display CGI


Results 1 - 20 of 30 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
9330 3' -60.6 NC_002512.2 + 178818 0.77 0.233774
Target:  5'- uUGGUCCgacaGCGCCC-GGACGuGCUCGGg -3'
miRNA:   3'- cACCAGG----UGUGGGuCCUGC-CGAGCCa -5'
9330 3' -60.6 NC_002512.2 + 219419 0.75 0.326381
Target:  5'- --cGcCCACGCCCGGGGCGGCggCGGc -3'
miRNA:   3'- cacCaGGUGUGGGUCCUGCCGa-GCCa -5'
9330 3' -60.6 NC_002512.2 + 204808 0.72 0.460916
Target:  5'- -aGGUCCGCGuCCCGGGggcgcgGCGGCUCcGUc -3'
miRNA:   3'- caCCAGGUGU-GGGUCC------UGCCGAGcCA- -5'
9330 3' -60.6 NC_002512.2 + 145032 0.71 0.505762
Target:  5'- -cGGgcgCgcaACGCCCGGGACGGC-CGGg -3'
miRNA:   3'- caCCa--Gg--UGUGGGUCCUGCCGaGCCa -5'
9330 3' -60.6 NC_002512.2 + 183945 0.71 0.524224
Target:  5'- cUGGuUCUGCuCCCGGGACGcgcGCUCGGg -3'
miRNA:   3'- cACC-AGGUGuGGGUCCUGC---CGAGCCa -5'
9330 3' -60.6 NC_002512.2 + 116437 0.71 0.533551
Target:  5'- aUGGUCCACcugaucgccACCCagcucgGGGACGGggCGGUg -3'
miRNA:   3'- cACCAGGUG---------UGGG------UCCUGCCgaGCCA- -5'
9330 3' -60.6 NC_002512.2 + 178229 0.7 0.552376
Target:  5'- -aGGUCCAgGgucuCCgGGGACGGCgCGGUc -3'
miRNA:   3'- caCCAGGUgU----GGgUCCUGCCGaGCCA- -5'
9330 3' -60.6 NC_002512.2 + 103449 0.69 0.60985
Target:  5'- -cGGUCCGaGCgCGGGuccgaggacGCGGCUCGGg -3'
miRNA:   3'- caCCAGGUgUGgGUCC---------UGCCGAGCCa -5'
9330 3' -60.6 NC_002512.2 + 158617 0.69 0.619516
Target:  5'- -gGGUCCugGcggCCCuGGACGGCUCc-- -3'
miRNA:   3'- caCCAGGugU---GGGuCCUGCCGAGcca -5'
9330 3' -60.6 NC_002512.2 + 105884 0.69 0.619516
Target:  5'- -gGGUCCGucuccCACCC-GGugGGCUCGc- -3'
miRNA:   3'- caCCAGGU-----GUGGGuCCugCCGAGCca -5'
9330 3' -60.6 NC_002512.2 + 218106 0.69 0.638868
Target:  5'- -cGGgcgUCGCGCCCGGGGucGCUCGGg -3'
miRNA:   3'- caCCa--GGUGUGGGUCCUgcCGAGCCa -5'
9330 3' -60.6 NC_002512.2 + 204871 0.68 0.676497
Target:  5'- -aGGUCCGCGaCCGacggcgagcucucGGACGGCgagCGGUc -3'
miRNA:   3'- caCCAGGUGUgGGU-------------CCUGCCGa--GCCA- -5'
9330 3' -60.6 NC_002512.2 + 157136 0.68 0.706075
Target:  5'- -gGGUCgGCggcggGCCCGGGGCGgGCggCGGg -3'
miRNA:   3'- caCCAGgUG-----UGGGUCCUGC-CGa-GCCa -5'
9330 3' -60.6 NC_002512.2 + 132530 0.67 0.743413
Target:  5'- -cGGUCCcCGCuCCGcGGGCGGCgccgUCGGc -3'
miRNA:   3'- caCCAGGuGUG-GGU-CCUGCCG----AGCCa -5'
9330 3' -60.6 NC_002512.2 + 93028 0.67 0.761591
Target:  5'- uGUGGuUCCACACggaggCGGGACGGCUg--- -3'
miRNA:   3'- -CACC-AGGUGUGg----GUCCUGCCGAgcca -5'
9330 3' -60.6 NC_002512.2 + 211331 0.67 0.761591
Target:  5'- -cGGUCCGgGCCCgggcgcuggGGGACGcGCgCGGc -3'
miRNA:   3'- caCCAGGUgUGGG---------UCCUGC-CGaGCCa -5'
9330 3' -60.6 NC_002512.2 + 113219 0.67 0.770531
Target:  5'- -gGGUCCuCGCCCGGGGagacgGGCaCGGc -3'
miRNA:   3'- caCCAGGuGUGGGUCCUg----CCGaGCCa -5'
9330 3' -60.6 NC_002512.2 + 223219 0.67 0.770531
Target:  5'- -cGGagCGCGuCCC-GGcCGGCUCGGUg -3'
miRNA:   3'- caCCagGUGU-GGGuCCuGCCGAGCCA- -5'
9330 3' -60.6 NC_002512.2 + 44048 0.66 0.779359
Target:  5'- cGUGGUCCACuuUUCGGGGCGccuagaUCGGUu -3'
miRNA:   3'- -CACCAGGUGu-GGGUCCUGCcg----AGCCA- -5'
9330 3' -60.6 NC_002512.2 + 118857 0.66 0.779359
Target:  5'- aUGGUCCuggGCAUCCuGGAguaCGGC-CGGg -3'
miRNA:   3'- cACCAGG---UGUGGGuCCU---GCCGaGCCa -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.