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 + 137652 1.08 0.001823
Target:  5'- aACCACUCGCGCACUCCUCACUCGGUCu -3'
miRNA:   3'- -UGGUGAGCGCGUGAGGAGUGAGCCAG- -5'
25029 3' -57.9 NC_005336.1 + 137652 1.08 0.001823
Target:  5'- aACCACUCGCGCACUCCUCACUCGGUCu -3'
miRNA:   3'- -UGGUGAGCGCGUGAGGAGUGAGCCAG- -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 + 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 + 55625 0.73 0.412634
Target:  5'- cCCGC-CGCGUGCUCCaCGC-CGGUCg -3'
miRNA:   3'- uGGUGaGCGCGUGAGGaGUGaGCCAG- -5'
25029 3' -57.9 NC_005336.1 + 75671 0.73 0.429275
Target:  5'- uGCCcCUCGCGCACggcaaaCUCgugcgcgACUCGGUCc -3'
miRNA:   3'- -UGGuGAGCGCGUGag----GAG-------UGAGCCAG- -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 + 86245 0.73 0.439087
Target:  5'- gACCAC-CGCgGC-CUCCUC-CUCGGUg -3'
miRNA:   3'- -UGGUGaGCG-CGuGAGGAGuGAGCCAg -5'
25029 3' -57.9 NC_005336.1 + 108980 0.72 0.448118
Target:  5'- aGCCGCUgGUGCGCgCC-CGCgCGGUCg -3'
miRNA:   3'- -UGGUGAgCGCGUGaGGaGUGaGCCAG- -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 + 39906 0.72 0.494736
Target:  5'- cACCGCUCgGCGCAgUCCUCcagGCUCGcG-Ca -3'
miRNA:   3'- -UGGUGAG-CGCGUgAGGAG---UGAGC-CaG- -5'
25029 3' -57.9 NC_005336.1 + 11731 0.71 0.513997
Target:  5'- -gCGCUCGCGCGCUCUccgCACUCagcaaGUCu -3'
miRNA:   3'- ugGUGAGCGCGUGAGGa--GUGAGc----CAG- -5'
25029 3' -57.9 NC_005336.1 + 9416 0.71 0.517887
Target:  5'- gGCCGCgugcagaGCGCGCUcgggcucgccgagaaCCUCGCUCGG-Cg -3'
miRNA:   3'- -UGGUGag-----CGCGUGA---------------GGAGUGAGCCaG- -5'
25029 3' -57.9 NC_005336.1 + 104457 0.71 0.543437
Target:  5'- cGCCGCg-GCGCGC-CCUCGCUgGG-Ca -3'
miRNA:   3'- -UGGUGagCGCGUGaGGAGUGAgCCaG- -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'
25029 3' -57.9 NC_005336.1 + 80984 0.7 0.593606
Target:  5'- gGCgCGCUCGCGCGCgaaCUC-CagGGUCa -3'
miRNA:   3'- -UG-GUGAGCGCGUGag-GAGuGagCCAG- -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.