miRNA display CGI


Results 1 - 20 of 41 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
23692 3' -51.8 NC_005261.1 + 933 0.66 0.983978
Target:  5'- cCCCccAGCCGGGCCUcccucuccucccuccGAGCCCGuAGa -3'
miRNA:   3'- -GGGauUUGGUCUGGAac-------------UUCGGGC-UC- -5'
23692 3' -51.8 NC_005261.1 + 1232 0.72 0.80162
Target:  5'- gCCgucGCCGGcCCcggGAAGCCCGAGu -3'
miRNA:   3'- gGGauuUGGUCuGGaa-CUUCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 6213 0.67 0.970106
Target:  5'- gCCCgc--CCAGACCUggcgguccaggUGc-GCCCGGGg -3'
miRNA:   3'- -GGGauuuGGUCUGGA-----------ACuuCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 11667 0.67 0.975703
Target:  5'- cCCCUGAACCccGCC--GGAGCCCc-- -3'
miRNA:   3'- -GGGAUUUGGucUGGaaCUUCGGGcuc -5'
23692 3' -51.8 NC_005261.1 + 12690 1.1 0.005823
Target:  5'- uCCCUAAACCAGACCUUGAAGCCCGAGc -3'
miRNA:   3'- -GGGAUUUGGUCUGGAACUUCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 14292 0.67 0.975703
Target:  5'- gCCaAGGCCGgccccGACCggu-AGCCCGAGg -3'
miRNA:   3'- gGGaUUUGGU-----CUGGaacuUCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 15915 0.7 0.89116
Target:  5'- cCCCgcgcAGCCgGGGCCggggccGggGCCCGGGc -3'
miRNA:   3'- -GGGau--UUGG-UCUGGaa----CuuCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 16266 0.68 0.95626
Target:  5'- gCCgGGGCCGGGCUUcGGcucGCCCGGGg -3'
miRNA:   3'- gGGaUUUGGUCUGGAaCUu--CGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 20713 0.67 0.966985
Target:  5'- -gCUGAACuCGGGCCgcgcUGggGCUCGGc -3'
miRNA:   3'- ggGAUUUG-GUCUGGa---ACuuCGGGCUc -5'
23692 3' -51.8 NC_005261.1 + 22646 0.68 0.955866
Target:  5'- uCCCUAGACgcgcuggCGGcGCCUgggcGgcGCCCGAGu -3'
miRNA:   3'- -GGGAUUUG-------GUC-UGGAa---CuuCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 22700 0.69 0.922697
Target:  5'- gCCCggcGACgAGGCCgucgaGGAGCCgGAGg -3'
miRNA:   3'- -GGGau-UUGgUCUGGaa---CUUCGGgCUC- -5'
23692 3' -51.8 NC_005261.1 + 28713 0.66 0.98454
Target:  5'- aCCCgggGGGCCcggGGGCCUcGgcGCCCuccGAGg -3'
miRNA:   3'- -GGGa--UUUGG---UCUGGAaCuuCGGG---CUC- -5'
23692 3' -51.8 NC_005261.1 + 28954 0.76 0.587481
Target:  5'- gCCgAAGCCAGGCCc--AAGCCCGAGc -3'
miRNA:   3'- gGGaUUUGGUCUGGaacUUCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 30719 0.77 0.535656
Target:  5'- cCCCggcGCCGGGCCgccAGGCCCGAGc -3'
miRNA:   3'- -GGGauuUGGUCUGGaacUUCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 30763 0.77 0.52547
Target:  5'- gCCCUAGuCCGGGCC--GGAGCCCGGc -3'
miRNA:   3'- -GGGAUUuGGUCUGGaaCUUCGGGCUc -5'
23692 3' -51.8 NC_005261.1 + 30803 0.66 0.98454
Target:  5'- gCUgGGGCCGGaggaGCUgggGggGCCCGGGg -3'
miRNA:   3'- gGGaUUUGGUC----UGGaa-CuuCGGGCUC- -5'
23692 3' -51.8 NC_005261.1 + 30943 0.73 0.773306
Target:  5'- cCCCUcgGGGgCGGGCCUcGAGGCCCGc- -3'
miRNA:   3'- -GGGA--UUUgGUCUGGAaCUUCGGGCuc -5'
23692 3' -51.8 NC_005261.1 + 31559 0.66 0.980493
Target:  5'- gCCUGGGCCGGGuCCUggacgGgcGCgCCGGa -3'
miRNA:   3'- gGGAUUUGGUCU-GGAa----CuuCG-GGCUc -5'
23692 3' -51.8 NC_005261.1 + 33475 0.67 0.970106
Target:  5'- gCCgcAGCCGGGCCcgcucgcGggGCCCGcGa -3'
miRNA:   3'- gGGauUUGGUCUGGaa-----CuuCGGGCuC- -5'
23692 3' -51.8 NC_005261.1 + 33740 0.68 0.95626
Target:  5'- cCCCUcgcgcggcgccgGGGCCGGGCCcgcucgcGggGCCCGcGg -3'
miRNA:   3'- -GGGA------------UUUGGUCUGGaa-----CuuCGGGCuC- -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.