miRNA display CGI


Results 1 - 20 of 67 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
25029 3' -57.9 NC_005336.1 + 127562 0.67 0.772842
Target:  5'- cCCGCUCGCGCGCgacaUCAUcCGG-Cg -3'
miRNA:   3'- uGGUGAGCGCGUGagg-AGUGaGCCaG- -5'
25029 3' -57.9 NC_005336.1 + 8906 0.69 0.664789
Target:  5'- cGCgCGCUCGCGCAC-CCagaagCGGUCg -3'
miRNA:   3'- -UG-GUGAGCGCGUGaGGagugaGCCAG- -5'
25029 3' -57.9 NC_005336.1 + 128266 0.68 0.682997
Target:  5'- gGCCGCgcgcguggagcgCGUGCGCcgcaagUCCUCGCU-GGUCg -3'
miRNA:   3'- -UGGUGa-----------GCGCGUG------AGGAGUGAgCCAG- -5'
25029 3' -57.9 NC_005336.1 + 136243 0.68 0.695064
Target:  5'- gGCgCGCUCGCGCugguggcggcggGCUUCgCGCUCGG-Cg -3'
miRNA:   3'- -UG-GUGAGCGCG------------UGAGGaGUGAGCCaG- -5'
25029 3' -57.9 NC_005336.1 + 138032 0.68 0.715001
Target:  5'- -aCACUCGCuCGC-CaCUCACUCGGa- -3'
miRNA:   3'- ugGUGAGCGcGUGaG-GAGUGAGCCag -5'
25029 3' -57.9 NC_005336.1 + 6060 0.68 0.715001
Target:  5'- gACCACggUCGCGUAgUCCgccagCGCUCGcUCc -3'
miRNA:   3'- -UGGUG--AGCGCGUgAGGa----GUGAGCcAG- -5'
25029 3' -57.9 NC_005336.1 + 51119 0.68 0.715001
Target:  5'- gGCUcCUCGCucGCGCUggUCACUCGGUa -3'
miRNA:   3'- -UGGuGAGCG--CGUGAggAGUGAGCCAg -5'
25029 3' -57.9 NC_005336.1 + 77704 0.68 0.724869
Target:  5'- -gCGCUCGCGCACgugCgUCACgaaggCGG-Cg -3'
miRNA:   3'- ugGUGAGCGCGUGa--GgAGUGa----GCCaG- -5'
25029 3' -57.9 NC_005336.1 + 95526 0.67 0.76346
Target:  5'- -aCGCaaGCGCACUCCggCGCggcgCGGUg -3'
miRNA:   3'- ugGUGagCGCGUGAGGa-GUGa---GCCAg -5'
25029 3' -57.9 NC_005336.1 + 61642 0.69 0.664789
Target:  5'- cACCACgccCGCGCGCgcgCCggaCGCgUCGGUg -3'
miRNA:   3'- -UGGUGa--GCGCGUGa--GGa--GUG-AGCCAg -5'
25029 3' -57.9 NC_005336.1 + 137092 0.69 0.624094
Target:  5'- -aCugUUaGCGCACUCgCUCACUCGcUCg -3'
miRNA:   3'- ugGugAG-CGCGUGAG-GAGUGAGCcAG- -5'
25029 3' -57.9 NC_005336.1 + 14085 0.69 0.613915
Target:  5'- gGCgACUCGCGCGCUCaugaggCACgugCGG-Ca -3'
miRNA:   3'- -UGgUGAGCGCGUGAGga----GUGa--GCCaG- -5'
25029 3' -57.9 NC_005336.1 + 137137 0.77 0.233806
Target:  5'- cUCACUCGCuCGCUCaCUCACUCGGg- -3'
miRNA:   3'- uGGUGAGCGcGUGAG-GAGUGAGCCag -5'
25029 3' -57.9 NC_005336.1 + 76330 0.76 0.276224
Target:  5'- gGCCGCUgGCGCcCgUCCUC-CUUGGUCa -3'
miRNA:   3'- -UGGUGAgCGCGuG-AGGAGuGAGCCAG- -5'
25029 3' -57.9 NC_005336.1 + 92461 0.75 0.310142
Target:  5'- aGCUGCUCGCGCGCaCCgugcagCACUCGGa- -3'
miRNA:   3'- -UGGUGAGCGCGUGaGGa-----GUGAGCCag -5'
25029 3' -57.9 NC_005336.1 + 100983 0.73 0.430161
Target:  5'- gACCGCga--GCGCUCCUCGCU-GGUCu -3'
miRNA:   3'- -UGGUGagcgCGUGAGGAGUGAgCCAG- -5'
25029 3' -57.9 NC_005336.1 + 100488 0.73 0.430161
Target:  5'- cGCCGCUCgguGCGCACcuUCCUCGCgcucgCGGa- -3'
miRNA:   3'- -UGGUGAG---CGCGUG--AGGAGUGa----GCCag -5'
25029 3' -57.9 NC_005336.1 + 13801 0.72 0.466483
Target:  5'- gGCCACgCGCGCgaaggccgccaGCUCCUCGCgCGG-Ca -3'
miRNA:   3'- -UGGUGaGCGCG-----------UGAGGAGUGaGCCaG- -5'
25029 3' -57.9 NC_005336.1 + 132598 0.7 0.570393
Target:  5'- -aCugUCGCGCgagcucuaucacgaGCUCCg-ACUCGGUCu -3'
miRNA:   3'- ugGugAGCGCG--------------UGAGGagUGAGCCAG- -5'
25029 3' -57.9 NC_005336.1 + 32350 0.7 0.58349
Target:  5'- cGCCGCgCGCGC-CUCCgucaCGCUCGcGUUc -3'
miRNA:   3'- -UGGUGaGCGCGuGAGGa---GUGAGC-CAG- -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.