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
28555 3' -51.2 NC_005946.1 + 63912 0.66 0.979154
Target:  5'- -cUGCGUCCACcauGUCGAccuuGGAGAUGg-- -3'
miRNA:   3'- acACGCAGGUG---CGGCU----UUUCUACagg -5'
28555 3' -51.2 NC_005946.1 + 43971 0.66 0.971137
Target:  5'- -cUGCGUCCACcguGUgGAGAaaggGGAUGgugCCg -3'
miRNA:   3'- acACGCAGGUG---CGgCUUU----UCUACa--GG- -5'
28555 3' -51.2 NC_005946.1 + 12395 0.67 0.961113
Target:  5'- cGUGUGgcUCCACGCCcGggGAGcaaacgCCa -3'
miRNA:   3'- aCACGC--AGGUGCGG-CuuUUCuaca--GG- -5'
28555 3' -51.2 NC_005946.1 + 20359 0.67 0.957294
Target:  5'- --cGUGagCAgGCUgGAGAAGGUGUCCg -3'
miRNA:   3'- acaCGCagGUgCGG-CUUUUCUACAGG- -5'
28555 3' -51.2 NC_005946.1 + 101764 0.67 0.953227
Target:  5'- gGUGcCGUCCACGgCGAu----UGUCUu -3'
miRNA:   3'- aCAC-GCAGGUGCgGCUuuucuACAGG- -5'
28555 3' -51.2 NC_005946.1 + 41375 0.68 0.944329
Target:  5'- --aGgGUCCGCGUacagcagcgacgCGAAAAGA-GUCCu -3'
miRNA:   3'- acaCgCAGGUGCG------------GCUUUUCUaCAGG- -5'
28555 3' -51.2 NC_005946.1 + 24012 0.68 0.944329
Target:  5'- cUG-GCGuUCCuggUGCCGuacAGGGUGUCCa -3'
miRNA:   3'- -ACaCGC-AGGu--GCGGCuu-UUCUACAGG- -5'
28555 3' -51.2 NC_005946.1 + 83703 0.69 0.923397
Target:  5'- aGga-GUCCaccucuggACGCUGGGAAGGUGUCUg -3'
miRNA:   3'- aCacgCAGG--------UGCGGCUUUUCUACAGG- -5'
28555 3' -51.2 NC_005946.1 + 61464 0.69 0.917504
Target:  5'- --cGcCGcCCugGCCGAcAGGAUGcUCCu -3'
miRNA:   3'- acaC-GCaGGugCGGCUuUUCUAC-AGG- -5'
28555 3' -51.2 NC_005946.1 + 71775 0.69 0.898249
Target:  5'- --gGCacgGUCCugGUgGGGAAGGUGUCUc -3'
miRNA:   3'- acaCG---CAGGugCGgCUUUUCUACAGG- -5'
28555 3' -51.2 NC_005946.1 + 59422 0.7 0.891315
Target:  5'- cUG-GCGUCCaugGCGCaCGAacuGAGGAUGUUUg -3'
miRNA:   3'- -ACaCGCAGG---UGCG-GCU---UUUCUACAGG- -5'
28555 3' -51.2 NC_005946.1 + 21321 0.7 0.861108
Target:  5'- cUGUGUccagggCUugGCCGAGGAGGccggcaagcUGUCCg -3'
miRNA:   3'- -ACACGca----GGugCGGCUUUUCU---------ACAGG- -5'
28555 3' -51.2 NC_005946.1 + 34957 0.71 0.836032
Target:  5'- aGUGCGUCCagggcuucaggACGCuCGAGugccacAUGUCCa -3'
miRNA:   3'- aCACGCAGG-----------UGCG-GCUUuuc---UACAGG- -5'
28555 3' -51.2 NC_005946.1 + 82448 0.73 0.750748
Target:  5'- --gGCGUCCucgGCCGAGAGGAUGg-- -3'
miRNA:   3'- acaCGCAGGug-CGGCUUUUCUACagg -5'
28555 3' -51.2 NC_005946.1 + 82355 0.73 0.750748
Target:  5'- --gGCGUCCucgGCCGAGAGGAUGg-- -3'
miRNA:   3'- acaCGCAGGug-CGGCUUUUCUACagg -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.