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
25556 3' -58.8 NC_005337.1 + 33623 0.65 0.74608
Target:  5'- cGCCGGGUCCUucaGGCCcacguauauccgaUGCUcCUCGCg -3'
miRNA:   3'- cUGGUCUAGGAc--CCGG-------------ACGAcGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 33330 0.66 0.737251
Target:  5'- gGACUuGAUCCaGGGCUUGCUggggucgguGCgCACg -3'
miRNA:   3'- -CUGGuCUAGGaCCCGGACGA---------CGaGUG- -5'
25556 3' -58.8 NC_005337.1 + 80385 0.66 0.736265
Target:  5'- gGACCcGGUCgUGuGGCUgccgcugUGuCUGCUCGCg -3'
miRNA:   3'- -CUGGuCUAGgAC-CCGG-------AC-GACGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 74859 0.66 0.727354
Target:  5'- cGGCgAGGUCaaGGGCCUGCU-CUUccuGCg -3'
miRNA:   3'- -CUGgUCUAGgaCCCGGACGAcGAG---UG- -5'
25556 3' -58.8 NC_005337.1 + 115992 0.66 0.707318
Target:  5'- cGugCAcAUCgcgCUGGGCgUGCgGCUCACc -3'
miRNA:   3'- -CugGUcUAG---GACCCGgACGaCGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 38074 0.67 0.687023
Target:  5'- uGACCGGGUCCgUGGGC--GCcaccacGCUCAUg -3'
miRNA:   3'- -CUGGUCUAGG-ACCCGgaCGa-----CGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 47092 0.67 0.676802
Target:  5'- cACCAucguuaaCCUGGaCCUGCUGCUCGg -3'
miRNA:   3'- cUGGUcua----GGACCcGGACGACGAGUg -5'
25556 3' -58.8 NC_005337.1 + 116512 0.67 0.666543
Target:  5'- gGGCCAGAUCCUGacGGUgCUGgaGCUgCAg -3'
miRNA:   3'- -CUGGUCUAGGAC--CCG-GACgaCGA-GUg -5'
25556 3' -58.8 NC_005337.1 + 46194 0.67 0.645949
Target:  5'- cACCAuGUCCacGGCCUGCaugaGCUCGCc -3'
miRNA:   3'- cUGGUcUAGGacCCGGACGa---CGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 102552 0.67 0.645949
Target:  5'- aACCAGcUCaaGGGCCUGUaccUGCUCuCg -3'
miRNA:   3'- cUGGUCuAGgaCCCGGACG---ACGAGuG- -5'
25556 3' -58.8 NC_005337.1 + 47534 0.67 0.645949
Target:  5'- uGCCGGAgcgggaccUCgUGGGCCUGaUGC-CGCg -3'
miRNA:   3'- cUGGUCU--------AGgACCCGGACgACGaGUG- -5'
25556 3' -58.8 NC_005337.1 + 87954 0.68 0.625311
Target:  5'- -cCCGGAccUCCUgcgccugcacgGGGCgCUGCUGCgguUCACa -3'
miRNA:   3'- cuGGUCU--AGGA-----------CCCG-GACGACG---AGUG- -5'
25556 3' -58.8 NC_005337.1 + 84949 0.68 0.594412
Target:  5'- aGAUCAGGUCCcGGaUCUGCagggGCUCGCc -3'
miRNA:   3'- -CUGGUCUAGGaCCcGGACGa---CGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 73153 0.68 0.594412
Target:  5'- aACCAGAUCCUGGGgCgcGCcGUgCGCa -3'
miRNA:   3'- cUGGUCUAGGACCCgGa-CGaCGaGUG- -5'
25556 3' -58.8 NC_005337.1 + 22420 0.69 0.563765
Target:  5'- cACCGacAUCCgGGGCCUGCUccugcaGCUCAUc -3'
miRNA:   3'- cUGGUc-UAGGaCCCGGACGA------CGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 37609 0.71 0.428856
Target:  5'- cGACCAGGUUCUGGauGCUcacGUUGCUCAUc -3'
miRNA:   3'- -CUGGUCUAGGACC--CGGa--CGACGAGUG- -5'
25556 3' -58.8 NC_005337.1 + 104938 1.08 0.001307
Target:  5'- gGACCAGAUCCUGGGCCUGCUGCUCACc -3'
miRNA:   3'- -CUGGUCUAGGACCCGGACGACGAGUG- -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.