miRNA display CGI


Results 1 - 20 of 26 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
14473 3' -46.9 NC_003521.1 + 165437 0.66 0.999996
Target:  5'- -gGUGUuCUUGGGCGAGggGug--GCa -3'
miRNA:   3'- cgCACAcGAACCUGCUCuaCuuuaUG- -5'
14473 3' -46.9 NC_003521.1 + 133340 0.66 0.999995
Target:  5'- -aGUGUGCUcUGGGCGccGGAcgugGAGAUcaGCa -3'
miRNA:   3'- cgCACACGA-ACCUGC--UCUa---CUUUA--UG- -5'
14473 3' -46.9 NC_003521.1 + 113989 0.66 0.999994
Target:  5'- gGCG-GUGCaguucgUGGGCGAGcacgcgaaggugcugGAGGUGCg -3'
miRNA:   3'- -CGCaCACGa-----ACCUGCUCua-------------CUUUAUG- -5'
14473 3' -46.9 NC_003521.1 + 117926 0.66 0.999992
Target:  5'- gGCG-GUGCgcaGGACGGGGgagGAGGa-- -3'
miRNA:   3'- -CGCaCACGaa-CCUGCUCUa--CUUUaug -5'
14473 3' -46.9 NC_003521.1 + 133696 0.66 0.999991
Target:  5'- -gGUGUGCcUguacgagcuggacgaGGACGAGGUGGgcaggaGAUGCu -3'
miRNA:   3'- cgCACACGaA---------------CCUGCUCUACU------UUAUG- -5'
14473 3' -46.9 NC_003521.1 + 40688 0.66 0.999989
Target:  5'- gGCGgcGUGCUgUGGAaCGaAGGUGAGuguGUGCu -3'
miRNA:   3'- -CGCa-CACGA-ACCU-GC-UCUACUU---UAUG- -5'
14473 3' -46.9 NC_003521.1 + 45460 0.66 0.999989
Target:  5'- gGCGUGuUGC-UGGAUGGGAaguUGGAc--- -3'
miRNA:   3'- -CGCAC-ACGaACCUGCUCU---ACUUuaug -5'
14473 3' -46.9 NC_003521.1 + 366 0.66 0.999989
Target:  5'- gGCGgcGUGCUgUGGAaCGaAGGUGAGuguGUGCu -3'
miRNA:   3'- -CGCa-CACGA-ACCU-GC-UCUACUU---UAUG- -5'
14473 3' -46.9 NC_003521.1 + 214534 0.66 0.999985
Target:  5'- cGCGUGgcccugGCcUGGccuCGAGAccggugccUGggGUGCa -3'
miRNA:   3'- -CGCACa-----CGaACCu--GCUCU--------ACuuUAUG- -5'
14473 3' -46.9 NC_003521.1 + 224434 0.67 0.999973
Target:  5'- uGCGUGg---UGGGCGAGcgGuccAGGUGCg -3'
miRNA:   3'- -CGCACacgaACCUGCUCuaC---UUUAUG- -5'
14473 3' -46.9 NC_003521.1 + 234864 0.67 0.999963
Target:  5'- gGCGUcGUGUUcGGAUGAGAUGc----- -3'
miRNA:   3'- -CGCA-CACGAaCCUGCUCUACuuuaug -5'
14473 3' -46.9 NC_003521.1 + 103800 0.67 0.999951
Target:  5'- ---cGUGCUccGGCGAGAUGAccGUGCg -3'
miRNA:   3'- cgcaCACGAacCUGCUCUACUu-UAUG- -5'
14473 3' -46.9 NC_003521.1 + 198770 0.68 0.999855
Target:  5'- cGCGcc-GCUcgUGGGCGAGGUGGGuaGCa -3'
miRNA:   3'- -CGCacaCGA--ACCUGCUCUACUUuaUG- -5'
14473 3' -46.9 NC_003521.1 + 91317 0.68 0.999855
Target:  5'- uGCGUGUGCgcgcgGGggcacGCGcAGgcGAGGUGCu -3'
miRNA:   3'- -CGCACACGaa---CC-----UGC-UCuaCUUUAUG- -5'
14473 3' -46.9 NC_003521.1 + 101724 0.69 0.99941
Target:  5'- uGCGcG-GCggGGGCGAGAUGggGa-- -3'
miRNA:   3'- -CGCaCaCGaaCCUGCUCUACuuUaug -5'
14473 3' -46.9 NC_003521.1 + 240081 0.7 0.999271
Target:  5'- gGCGUGggGCUUGcACGuGGUGggGUuguGCa -3'
miRNA:   3'- -CGCACa-CGAACcUGCuCUACuuUA---UG- -5'
14473 3' -46.9 NC_003521.1 + 39854 0.7 0.999271
Target:  5'- gGCGUGggGCUUGcACGuGGUGggGUuguGCa -3'
miRNA:   3'- -CGCACa-CGAACcUGCuCUACuuUA---UG- -5'
14473 3' -46.9 NC_003521.1 + 168138 0.7 0.999105
Target:  5'- aGCGccGUGggUGGACGGGgcGGAAUAg -3'
miRNA:   3'- -CGCa-CACgaACCUGCUCuaCUUUAUg -5'
14473 3' -46.9 NC_003521.1 + 170525 0.7 0.998648
Target:  5'- gGCGUGUGaCggGGACGGGGggcagGAGgguuuauGUACa -3'
miRNA:   3'- -CGCACAC-GaaCCUGCUCUa----CUU-------UAUG- -5'
14473 3' -46.9 NC_003521.1 + 50499 0.71 0.998078
Target:  5'- aGCGUGUcgGCggcGGugGAGAUGG--UACc -3'
miRNA:   3'- -CGCACA--CGaa-CCugCUCUACUuuAUG- -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.