miRNA display CGI


Results 1 - 20 of 35 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
12791 3' -52.8 NC_003387.1 + 42160 1.1 0.001264
Target:  5'- uUCAGCUUGAACUGCGCCGAGUCGAUCu -3'
miRNA:   3'- -AGUCGAACUUGACGCGGCUCAGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 19924 0.81 0.133997
Target:  5'- --uGCUUGAGCUGCGCCaGGUCGAc- -3'
miRNA:   3'- aguCGAACUUGACGCGGcUCAGCUag -5'
12791 3' -52.8 NC_003387.1 + 48981 0.79 0.172809
Target:  5'- gUCAGCUUGGAC-GaCGCCGAcagguacggGUCGAUCa -3'
miRNA:   3'- -AGUCGAACUUGaC-GCGGCU---------CAGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 51425 0.75 0.344199
Target:  5'- gCGGCgccgccucGAACUGCGCCG-GUCGAa- -3'
miRNA:   3'- aGUCGaa------CUUGACGCGGCuCAGCUag -5'
12791 3' -52.8 NC_003387.1 + 24564 0.74 0.379418
Target:  5'- aCGGCgagccGAGCUG-GCCGGGcUCGAUCg -3'
miRNA:   3'- aGUCGaa---CUUGACgCGGCUC-AGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 28995 0.74 0.379418
Target:  5'- --cGCUgGAucgcCUGCGCCGAGUCGuUCg -3'
miRNA:   3'- aguCGAaCUu---GACGCGGCUCAGCuAG- -5'
12791 3' -52.8 NC_003387.1 + 24840 0.73 0.407371
Target:  5'- gCGGCUggccGGGCUccugcucgaccGCGCCGGuGUCGAUCg -3'
miRNA:   3'- aGUCGAa---CUUGA-----------CGCGGCU-CAGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 254 0.71 0.509077
Target:  5'- cUCAGCgugcagUGcccuGGCUGCGCCGcGcCGGUCg -3'
miRNA:   3'- -AGUCGa-----AC----UUGACGCGGCuCaGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 26599 0.71 0.551606
Target:  5'- gCGGCgacGGAC-GCGCCGAccuggcgcagguaGUCGAUCg -3'
miRNA:   3'- aGUCGaa-CUUGaCGCGGCU-------------CAGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 13455 0.71 0.552712
Target:  5'- gCAGCUUGcccAGCU-CGCCGAgGUCGAacUCg -3'
miRNA:   3'- aGUCGAAC---UUGAcGCGGCU-CAGCU--AG- -5'
12791 3' -52.8 NC_003387.1 + 11098 0.69 0.61997
Target:  5'- cUUAGCUUGGGCgcgGuCGUCGAacUCGAUCa -3'
miRNA:   3'- -AGUCGAACUUGa--C-GCGGCUc-AGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 33430 0.69 0.642583
Target:  5'- -gAGCUggaucGGGCUGC-CCGAGgCGGUCa -3'
miRNA:   3'- agUCGAa----CUUGACGcGGCUCaGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 29684 0.69 0.647104
Target:  5'- aUCGGCacgccgccgggcacgUUGAacuGCUGCGUCGAGcCGGUg -3'
miRNA:   3'- -AGUCG---------------AACU---UGACGCGGCUCaGCUAg -5'
12791 3' -52.8 NC_003387.1 + 29786 0.69 0.665155
Target:  5'- gUCAGCUUGcGCguguauccgGCGCCGcuaauuUCGGUCg -3'
miRNA:   3'- -AGUCGAACuUGa--------CGCGGCuc----AGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 51562 0.68 0.709814
Target:  5'- cUCGGUgagGAuCUGCGCCucGUCGAa- -3'
miRNA:   3'- -AGUCGaa-CUuGACGCGGcuCAGCUag -5'
12791 3' -52.8 NC_003387.1 + 13883 0.68 0.709815
Target:  5'- uUCAuGcCUUGAGCUGCGgCGGcucGUCGAg- -3'
miRNA:   3'- -AGU-C-GAACUUGACGCgGCU---CAGCUag -5'
12791 3' -52.8 NC_003387.1 + 46924 0.68 0.709815
Target:  5'- gCAcGCUUGAGCcggGCaCCGAgguGUCGAUCc -3'
miRNA:   3'- aGU-CGAACUUGa--CGcGGCU---CAGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 48946 0.68 0.709815
Target:  5'- cUCAGCUUcGAggcGCUGCGU-GAGcuggCGAUCg -3'
miRNA:   3'- -AGUCGAA-CU---UGACGCGgCUCa---GCUAG- -5'
12791 3' -52.8 NC_003387.1 + 45381 0.68 0.709815
Target:  5'- cCGGCgguuAGCUGCGCCcggccgcccGAGcCGAUCg -3'
miRNA:   3'- aGUCGaac-UUGACGCGG---------CUCaGCUAG- -5'
12791 3' -52.8 NC_003387.1 + 3946 0.67 0.73171
Target:  5'- aUCAGCggcGAgcugGCUGCGCCGAGcacCGcgUg -3'
miRNA:   3'- -AGUCGaa-CU----UGACGCGGCUCa--GCuaG- -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.