miRNA display CGI


Results 1 - 20 of 29 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
27024 3' -55.9 NC_005832.1 + 80112 0.66 0.842899
Target:  5'- gGGACguugggGUCCcccaccuCCCUCCUCCACc -3'
miRNA:   3'- -UCUGaga---UAGGacgu---GGGAGGAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 13431 0.66 0.842899
Target:  5'- aAGACcaUCg--CCguggacgGCACCUUCCUCCuGCa -3'
miRNA:   3'- -UCUG--AGauaGGa------CGUGGGAGGAGG-UG- -5'
27024 3' -55.9 NC_005832.1 + 8036 0.66 0.825747
Target:  5'- ---gUCUGUCCU-CACCCUCUcCCAg -3'
miRNA:   3'- ucugAGAUAGGAcGUGGGAGGaGGUg -5'
27024 3' -55.9 NC_005832.1 + 85560 0.66 0.816884
Target:  5'- uGAC-CUGcucUCCUGUAgCCUCgUCCAg -3'
miRNA:   3'- uCUGaGAU---AGGACGUgGGAGgAGGUg -5'
27024 3' -55.9 NC_005832.1 + 28235 0.66 0.807841
Target:  5'- gGGACUUguagUCUcCGCCCgcaaCCUCCACg -3'
miRNA:   3'- -UCUGAGaua-GGAcGUGGGa---GGAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 320 0.67 0.789252
Target:  5'- uGACUUU-UCCaaGUAcguCCCUCCUCCGCc -3'
miRNA:   3'- uCUGAGAuAGGa-CGU---GGGAGGAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 1296 0.67 0.789252
Target:  5'- uGGugUCUGagacUCCaGCGucCCCUCCccagCCACa -3'
miRNA:   3'- -UCugAGAU----AGGaCGU--GGGAGGa---GGUG- -5'
27024 3' -55.9 NC_005832.1 + 78595 0.67 0.78641
Target:  5'- uGGACUCUGcggcgcccaccggcUCgUGC-CCCUacaUCUCCGCu -3'
miRNA:   3'- -UCUGAGAU--------------AGgACGuGGGA---GGAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 10461 0.67 0.779725
Target:  5'- uAGuCUC---CCUGCcggugGCUCUCCUCCACc -3'
miRNA:   3'- -UCuGAGauaGGACG-----UGGGAGGAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 83339 0.67 0.779725
Target:  5'- -aACUCUGUUCUGUACUCgacgUCgUCCAUg -3'
miRNA:   3'- ucUGAGAUAGGACGUGGG----AGgAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 54101 0.67 0.770057
Target:  5'- cGGACUCUAgggucuuuacaUCCgGCGCuCCcCCUCC-Cg -3'
miRNA:   3'- -UCUGAGAU-----------AGGaCGUG-GGaGGAGGuG- -5'
27024 3' -55.9 NC_005832.1 + 32292 0.67 0.760257
Target:  5'- uGGACUCc--CCU-CGCCgCUCCUCCGg -3'
miRNA:   3'- -UCUGAGauaGGAcGUGG-GAGGAGGUg -5'
27024 3' -55.9 NC_005832.1 + 20991 0.67 0.750335
Target:  5'- uGGCUCUGUCCUccaggaucccaGCuCCCgccggCCUCCu- -3'
miRNA:   3'- uCUGAGAUAGGA-----------CGuGGGa----GGAGGug -5'
27024 3' -55.9 NC_005832.1 + 39415 0.67 0.740301
Target:  5'- uGGACUCcg-UCUGCGCCCgcggggccCCUUUACg -3'
miRNA:   3'- -UCUGAGauaGGACGUGGGa-------GGAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 66765 0.68 0.709635
Target:  5'- cGGACgccacguUCCUGC-CCCUCgUCCAg -3'
miRNA:   3'- -UCUGagau---AGGACGuGGGAGgAGGUg -5'
27024 3' -55.9 NC_005832.1 + 63046 0.69 0.657246
Target:  5'- uAGAUUCUAucuUCCUGggggccaaACCCUCCaUCCAg -3'
miRNA:   3'- -UCUGAGAU---AGGACg-------UGGGAGG-AGGUg -5'
27024 3' -55.9 NC_005832.1 + 70580 0.69 0.646665
Target:  5'- uAGGCUCUcuuAUCCUGCGCUUUCU--CACa -3'
miRNA:   3'- -UCUGAGA---UAGGACGUGGGAGGagGUG- -5'
27024 3' -55.9 NC_005832.1 + 44979 0.69 0.64031
Target:  5'- gGGACUCUgagaccccgugagagAUUUUGCACCaCUgCUCCAUc -3'
miRNA:   3'- -UCUGAGA---------------UAGGACGUGG-GAgGAGGUG- -5'
27024 3' -55.9 NC_005832.1 + 100615 0.69 0.636072
Target:  5'- uGGACUCUAcUCCgGC-CUCUCCcauagCCGCa -3'
miRNA:   3'- -UCUGAGAU-AGGaCGuGGGAGGa----GGUG- -5'
27024 3' -55.9 NC_005832.1 + 26937 0.69 0.625476
Target:  5'- uGcCUCUGcaagCgUGCACCCUCCUgcucCCGCa -3'
miRNA:   3'- uCuGAGAUa---GgACGUGGGAGGA----GGUG- -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.