miRNA display CGI


Results 1 - 20 of 22 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
1445 3' -51.7 NC_001335.1 + 8295 0.66 0.907171
Target:  5'- gUGuCGUUUGgCGUUCAGAACGuguuGGCg -3'
miRNA:   3'- gGCuGCAAGCaGCAGGUCUUGCu---CUG- -5'
1445 3' -51.7 NC_001335.1 + 50745 0.66 0.907171
Target:  5'- gCGACGagUCGUCGgCCgGGGGCGGcGCa -3'
miRNA:   3'- gGCUGCa-AGCAGCaGG-UCUUGCUcUG- -5'
1445 3' -51.7 NC_001335.1 + 24567 0.66 0.900387
Target:  5'- gCGACGUgaggCGgaacCGUCaCAGGACGcuucgaccGGACg -3'
miRNA:   3'- gGCUGCAa---GCa---GCAG-GUCUUGC--------UCUG- -5'
1445 3' -51.7 NC_001335.1 + 39805 0.66 0.900387
Target:  5'- aCCGugGUgcgGUCcuUCCAGAucCGAGAUc -3'
miRNA:   3'- -GGCugCAag-CAGc-AGGUCUu-GCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 12749 0.67 0.886006
Target:  5'- gCCGACGcagCGgcuuucaCGUCCAGGuCGGGGa -3'
miRNA:   3'- -GGCUGCaa-GCa------GCAGGUCUuGCUCUg -5'
1445 3' -51.7 NC_001335.1 + 35046 0.67 0.886006
Target:  5'- gUCGGCagagUCGcCG-CCAGAgaACGAGACc -3'
miRNA:   3'- -GGCUGca--AGCaGCaGGUCU--UGCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 11616 0.67 0.886006
Target:  5'- aCGACGcacucaCGUCGccggUCCAGuGCGGGAUc -3'
miRNA:   3'- gGCUGCaa----GCAGC----AGGUCuUGCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 50811 0.67 0.878418
Target:  5'- gCCGACGacUCGUCG-CUGGGccUGAGACu -3'
miRNA:   3'- -GGCUGCa-AGCAGCaGGUCUu-GCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 4865 0.67 0.870573
Target:  5'- gUGAUGcUCGUCGggcUCCAGcACgGAGGCg -3'
miRNA:   3'- gGCUGCaAGCAGC---AGGUCuUG-CUCUG- -5'
1445 3' -51.7 NC_001335.1 + 14469 0.67 0.865745
Target:  5'- gCCGACGcUCGUCcaaccgguagcaccgGUCCAGGucuCG-GGCu -3'
miRNA:   3'- -GGCUGCaAGCAG---------------CAGGUCUu--GCuCUG- -5'
1445 3' -51.7 NC_001335.1 + 23183 0.67 0.854138
Target:  5'- aCGACGc-CGUCGUCCgaccauguggccAGcACGGGGCc -3'
miRNA:   3'- gGCUGCaaGCAGCAGG------------UCuUGCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 18888 0.68 0.845563
Target:  5'- aCGGCGg----CGUCCAGAACGAcGGg -3'
miRNA:   3'- gGCUGCaagcaGCAGGUCUUGCU-CUg -5'
1445 3' -51.7 NC_001335.1 + 6432 0.68 0.836761
Target:  5'- cUCGuacuCGUgcaUGUCGUCCuccuuGAugGAGGCg -3'
miRNA:   3'- -GGCu---GCAa--GCAGCAGGu----CUugCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 38507 0.68 0.818512
Target:  5'- aCGGCGuUUCGUCGcCguGGAaGGGGCa -3'
miRNA:   3'- gGCUGC-AAGCAGCaGguCUUgCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 11900 0.7 0.747909
Target:  5'- gUCGGCGUUggagccggUGcCGUCCGGGuccaccaGCGAGACc -3'
miRNA:   3'- -GGCUGCAA--------GCaGCAGGUCU-------UGCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 28960 0.7 0.738445
Target:  5'- aUGAUccagUCGUCGUCgCGGGACGuGACc -3'
miRNA:   3'- gGCUGca--AGCAGCAG-GUCUUGCuCUG- -5'
1445 3' -51.7 NC_001335.1 + 8317 0.7 0.70631
Target:  5'- gCGcUGUccUCG-CGUUCGGGGCGAGACa -3'
miRNA:   3'- gGCuGCA--AGCaGCAGGUCUUGCUCUG- -5'
1445 3' -51.7 NC_001335.1 + 16072 0.71 0.673512
Target:  5'- gUCGACGguuaCGUCGaCCGGGACGuGAa -3'
miRNA:   3'- -GGCUGCaa--GCAGCaGGUCUUGCuCUg -5'
1445 3' -51.7 NC_001335.1 + 34106 0.71 0.65143
Target:  5'- aCCGAgaUGUUCGUCGUCCAGuGCu---- -3'
miRNA:   3'- -GGCU--GCAAGCAGCAGGUCuUGcucug -5'
1445 3' -51.7 NC_001335.1 + 38749 0.72 0.596087
Target:  5'- aCCGGCGagggcUUCGccgcCGUCCuGAACGGGAUc -3'
miRNA:   3'- -GGCUGC-----AAGCa---GCAGGuCUUGCUCUG- -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.