miRNA display CGI


Results 1 - 17 of 17 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
28345 3' -55.9 NC_005946.1 + 48723 0.66 0.842054
Target:  5'- gGGACguugggGUCCcccaucuCCCUCCUCCACc -3'
miRNA:   3'- -UCUGaga---UAGGacgu---GGGAGGAGGUG- -5'
28345 3' -55.9 NC_005946.1 + 83418 0.66 0.842054
Target:  5'- cGugUCUccCCUGCugCUgcaucccguUCCUCUGCa -3'
miRNA:   3'- uCugAGAuaGGACGugGG---------AGGAGGUG- -5'
28345 3' -55.9 NC_005946.1 + 51693 0.66 0.842054
Target:  5'- cGACUCUGUCUUGguCUa--CUCCAa -3'
miRNA:   3'- uCUGAGAUAGGACguGGgagGAGGUg -5'
28345 3' -55.9 NC_005946.1 + 101936 0.66 0.833555
Target:  5'- aGGGC-CUGcuUCCUGCA-CCUCCUgUGCu -3'
miRNA:   3'- -UCUGaGAU--AGGACGUgGGAGGAgGUG- -5'
28345 3' -55.9 NC_005946.1 + 11041 0.66 0.824858
Target:  5'- ---gUCUGUCCU-CACCCUCUcCCAg -3'
miRNA:   3'- ucugAGAUAGGAcGUGGGAGGaGGUg -5'
28345 3' -55.9 NC_005946.1 + 66831 0.66 0.797678
Target:  5'- gGGACUgcgcccaaggCUGUCgaGUGCgaCCUCCUCUACg -3'
miRNA:   3'- -UCUGA----------GAUAGgaCGUG--GGAGGAGGUG- -5'
28345 3' -55.9 NC_005946.1 + 1948 0.67 0.788284
Target:  5'- uGACUUU-UCCaaGUAcguCCCUCCUCCGCc -3'
miRNA:   3'- uCUGAGAuAGGa-CGU---GGGAGGAGGUG- -5'
28345 3' -55.9 NC_005946.1 + 5946 0.67 0.77874
Target:  5'- -aGCUUaugccgguuUCCUGUauGCCUUCCUCCACc -3'
miRNA:   3'- ucUGAGau-------AGGACG--UGGGAGGAGGUG- -5'
28345 3' -55.9 NC_005946.1 + 94112 0.67 0.749302
Target:  5'- uGGCUCUGUCCUccaggaucccaGCuCCCgccggCCUCCu- -3'
miRNA:   3'- uCUGAGAUAGGA-----------CGuGGGa----GGAGGug -5'
28345 3' -55.9 NC_005946.1 + 89264 0.69 0.677226
Target:  5'- uGcCUCUGcagggCgUGCACCCUCCUgcucCCGCa -3'
miRNA:   3'- uCuGAGAUa----GgACGUGGGAGGA----GGUG- -5'
28345 3' -55.9 NC_005946.1 + 47098 0.7 0.603174
Target:  5'- uGGACgaggCUAUCCUGCACgg-CCgCCGCa -3'
miRNA:   3'- -UCUGa---GAUAGGACGUGggaGGaGGUG- -5'
28345 3' -55.9 NC_005946.1 + 98196 0.7 0.57161
Target:  5'- uGGACUggGgcggCCUGCACCUg-CUCCACa -3'
miRNA:   3'- -UCUGAgaUa---GGACGUGGGagGAGGUG- -5'
28345 3' -55.9 NC_005946.1 + 4428 0.74 0.396299
Target:  5'- uGGACaggGUCCUcGCcauaguccacagGCCCUCCUCCGCg -3'
miRNA:   3'- -UCUGagaUAGGA-CG------------UGGGAGGAGGUG- -5'
28345 3' -55.9 NC_005946.1 + 36656 0.75 0.330202
Target:  5'- cGGACUCUGUCCaccCAUCCUCCUCgAa -3'
miRNA:   3'- -UCUGAGAUAGGac-GUGGGAGGAGgUg -5'
28345 3' -55.9 NC_005946.1 + 61891 0.76 0.272595
Target:  5'- cGGACUCUAgggucuuuacaUCCgGCAcCCCUCCUCC-Cg -3'
miRNA:   3'- -UCUGAGAU-----------AGGaCGU-GGGAGGAGGuG- -5'
28345 3' -55.9 NC_005946.1 + 26244 0.78 0.206911
Target:  5'- cGGACUCUAUCCUGUcugccaccGCCCUCCaaaacucucCCACc -3'
miRNA:   3'- -UCUGAGAUAGGACG--------UGGGAGGa--------GGUG- -5'
28345 3' -55.9 NC_005946.1 + 9363 1.1 0.001412
Target:  5'- cAGACUCUAUCCUGCACCCUCCUCCACa -3'
miRNA:   3'- -UCUGAGAUAGGACGUGGGAGGAGGUG- -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.