miRNA display CGI


Results 1 - 20 of 32 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
15864 5' -55.4 NC_004065.1 + 69331 1.07 0.008107
Target:  5'- uCGUGUUCGUCGGCGGGAAACCCGUCUu -3'
miRNA:   3'- -GCACAAGCAGCCGCCCUUUGGGCAGA- -5'
15864 5' -55.4 NC_004065.1 + 224905 0.75 0.617355
Target:  5'- gGUG-UCGUCGGUGagcGGAGGCCCGUg- -3'
miRNA:   3'- gCACaAGCAGCCGC---CCUUUGGGCAga -5'
15864 5' -55.4 NC_004065.1 + 81990 0.73 0.715189
Target:  5'- aCGUuUUCGgCGGCGGGGAaggcGCCCGUg- -3'
miRNA:   3'- -GCAcAAGCaGCCGCCCUU----UGGGCAga -5'
15864 5' -55.4 NC_004065.1 + 177393 0.72 0.762132
Target:  5'- gGUGUUCGUCGGUGGc-GACCUGa-- -3'
miRNA:   3'- gCACAAGCAGCCGCCcuUUGGGCaga -5'
15864 5' -55.4 NC_004065.1 + 174447 0.72 0.762132
Target:  5'- uCGUGUcCGaCGGCGGGA---CCGUCUa -3'
miRNA:   3'- -GCACAaGCaGCCGCCCUuugGGCAGA- -5'
15864 5' -55.4 NC_004065.1 + 139339 0.72 0.762132
Target:  5'- uCGUGUUCGUgcccagcgcCGGCaaGGGGgccaacagcAACCCGUCg -3'
miRNA:   3'- -GCACAAGCA---------GCCG--CCCU---------UUGGGCAGa -5'
15864 5' -55.4 NC_004065.1 + 167642 0.72 0.78908
Target:  5'- -aUGcUCGUCGGCGGGAcGgCCGUa- -3'
miRNA:   3'- gcACaAGCAGCCGCCCUuUgGGCAga -5'
15864 5' -55.4 NC_004065.1 + 102048 0.7 0.883129
Target:  5'- uCGggGUcUCGUCGGCGG---ACCUGUCUg -3'
miRNA:   3'- -GCa-CA-AGCAGCCGCCcuuUGGGCAGA- -5'
15864 5' -55.4 NC_004065.1 + 91368 0.7 0.854626
Target:  5'- cCGUGUaC-UCGGCGGGGgcgauaccuAGCUCGUCg -3'
miRNA:   3'- -GCACAaGcAGCCGCCCU---------UUGGGCAGa -5'
15864 5' -55.4 NC_004065.1 + 6515 0.7 0.857617
Target:  5'- aCGUGUUC-UCGGUGgaaucuaaggcuaacGGAugcGACCCGUCa -3'
miRNA:   3'- -GCACAAGcAGCCGC---------------CCU---UUGGGCAGa -5'
15864 5' -55.4 NC_004065.1 + 18169 0.7 0.876302
Target:  5'- cCGUGUggagCGcCGGcCGGGAcuCCCGUg- -3'
miRNA:   3'- -GCACAa---GCaGCC-GCCCUuuGGGCAga -5'
15864 5' -55.4 NC_004065.1 + 28574 0.7 0.862046
Target:  5'- uCGUGcgCGUCGaCGGGAcACCCucGUCUu -3'
miRNA:   3'- -GCACaaGCAGCcGCCCUuUGGG--CAGA- -5'
15864 5' -55.4 NC_004065.1 + 9451 0.69 0.901134
Target:  5'- aCGUGgcgaaacacgucUCGUUGGCGaGGAGACCgGcUCUa -3'
miRNA:   3'- -GCACa-----------AGCAGCCGC-CCUUUGGgC-AGA- -5'
15864 5' -55.4 NC_004065.1 + 169246 0.69 0.902356
Target:  5'- -aUGUUCGcgaGGCGGGAGGCCgCGg-- -3'
miRNA:   3'- gcACAAGCag-CCGCCCUUUGG-GCaga -5'
15864 5' -55.4 NC_004065.1 + 22287 0.69 0.893621
Target:  5'- uGUGUcauucgaUCGUCGGUGGGGuggacggugacguuGAcgacCCCGUCg -3'
miRNA:   3'- gCACA-------AGCAGCCGCCCU--------------UU----GGGCAGa -5'
15864 5' -55.4 NC_004065.1 + 75587 0.68 0.939586
Target:  5'- uCGUG-UCGcCGGCGGGggGaggCCG-CUg -3'
miRNA:   3'- -GCACaAGCaGCCGCCCuuUg--GGCaGA- -5'
15864 5' -55.4 NC_004065.1 + 57444 0.68 0.929053
Target:  5'- uGUGUcucuuuucuuagCGUCGGCGGGccgauCCCGUg- -3'
miRNA:   3'- gCACAa-----------GCAGCCGCCCuuu--GGGCAga -5'
15864 5' -55.4 NC_004065.1 + 142026 0.67 0.952238
Target:  5'- aCGUcgUCGUcgacgaCGGUGGGGGAUUCGUCa -3'
miRNA:   3'- -GCAcaAGCA------GCCGCCCUUUGGGCAGa -5'
15864 5' -55.4 NC_004065.1 + 96662 0.67 0.956025
Target:  5'- uCGg---CGUCGGCGGGcucGCCCGa-- -3'
miRNA:   3'- -GCacaaGCAGCCGCCCuu-UGGGCaga -5'
15864 5' -55.4 NC_004065.1 + 146756 0.67 0.959603
Target:  5'- uGUGggCGUCGGCGGcGucuGCCgcaucuccauCGUCg -3'
miRNA:   3'- gCACaaGCAGCCGCC-Cuu-UGG----------GCAGa -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.