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
25966 5' -56.3 NC_005337.1 + 18874 0.66 0.880359
Target:  5'- aCGGcGUcCUCGGAGCgGAgCGUgUCg -3'
miRNA:   3'- aGCCaCGaGAGCCUCGaCUgGUAgAG- -5'
25966 5' -56.3 NC_005337.1 + 56069 0.66 0.873105
Target:  5'- cUCGuacGUGCUCaagCGGuacCUGGCCAUCUa -3'
miRNA:   3'- -AGC---CACGAGa--GCCuc-GACUGGUAGAg -5'
25966 5' -56.3 NC_005337.1 + 70148 0.66 0.868647
Target:  5'- -aGGUGCUUguuUCGGAGCgUGAgCAugccgacggugccgcUCUCc -3'
miRNA:   3'- agCCACGAG---AGCCUCG-ACUgGU---------------AGAG- -5'
25966 5' -56.3 NC_005337.1 + 62730 0.66 0.865631
Target:  5'- gCGGUGCgUCUCGuugcuGGGCacGACCAgCUCc -3'
miRNA:   3'- aGCCACG-AGAGC-----CUCGa-CUGGUaGAG- -5'
25966 5' -56.3 NC_005337.1 + 131922 0.66 0.864872
Target:  5'- cCGGUGCUgcggcgcgcuggcCcCGGAGCUGuACCugCUCa -3'
miRNA:   3'- aGCCACGA-------------GaGCCUCGAC-UGGuaGAG- -5'
25966 5' -56.3 NC_005337.1 + 112073 0.66 0.850044
Target:  5'- gCGGaUGCUCUCGGugagcccGCUGugCcgCa- -3'
miRNA:   3'- aGCC-ACGAGAGCCu------CGACugGuaGag -5'
25966 5' -56.3 NC_005337.1 + 104900 0.67 0.833651
Target:  5'- cCGGUGCUCga--AGCUGAgCC-UCUCg -3'
miRNA:   3'- aGCCACGAGagccUCGACU-GGuAGAG- -5'
25966 5' -56.3 NC_005337.1 + 42775 0.67 0.82517
Target:  5'- uUCGuGUGCUCgggCGGcAGCgUGACCuUCg- -3'
miRNA:   3'- -AGC-CACGAGa--GCC-UCG-ACUGGuAGag -5'
25966 5' -56.3 NC_005337.1 + 133469 0.67 0.81651
Target:  5'- gCGGacgGCUCcgCGGAGCUGGuCUGcCUCg -3'
miRNA:   3'- aGCCa--CGAGa-GCCUCGACU-GGUaGAG- -5'
25966 5' -56.3 NC_005337.1 + 133469 0.67 0.81651
Target:  5'- gCGGacgGCUCcgCGGAGCUGGuCUGcCUCg -3'
miRNA:   3'- aGCCa--CGAGa-GCCUCGACU-GGUaGAG- -5'
25966 5' -56.3 NC_005337.1 + 44494 0.67 0.811231
Target:  5'- gUCGGUGUacacgacggagcgcaUCuUCGGGGUgc-CCAUCUCg -3'
miRNA:   3'- -AGCCACG---------------AG-AGCCUCGacuGGUAGAG- -5'
25966 5' -56.3 NC_005337.1 + 93486 0.67 0.807678
Target:  5'- gUGGUGCgcCUCGGAGaCgcgGACCugCUCa -3'
miRNA:   3'- aGCCACGa-GAGCCUC-Ga--CUGGuaGAG- -5'
25966 5' -56.3 NC_005337.1 + 102093 0.68 0.7603
Target:  5'- cUCGGUggcccuuccgcucGCgaaCUCGGAGCUGGacaUCAUCUUc -3'
miRNA:   3'- -AGCCA-------------CGa--GAGCCUCGACU---GGUAGAG- -5'
25966 5' -56.3 NC_005337.1 + 92122 0.69 0.72197
Target:  5'- gUCGGUGCUCUuccagacccCGGAcGCgccgcgGGCCAgcgccguccucgUCUCg -3'
miRNA:   3'- -AGCCACGAGA---------GCCU-CGa-----CUGGU------------AGAG- -5'
25966 5' -56.3 NC_005337.1 + 103036 0.69 0.691641
Target:  5'- cUCGcaGCUCUCGGuGCUGAgCucgAUCUCc -3'
miRNA:   3'- -AGCcaCGAGAGCCuCGACUgG---UAGAG- -5'
25966 5' -56.3 NC_005337.1 + 51518 0.69 0.691641
Target:  5'- cCGGUGUUCgUGGAGCccACCAUCg- -3'
miRNA:   3'- aGCCACGAGaGCCUCGacUGGUAGag -5'
25966 5' -56.3 NC_005337.1 + 67219 0.7 0.650535
Target:  5'- gCGGaUGCucuccacguaggUCUCGGAGCgGAUgGUCUCc -3'
miRNA:   3'- aGCC-ACG------------AGAGCCUCGaCUGgUAGAG- -5'
25966 5' -56.3 NC_005337.1 + 51578 0.72 0.557941
Target:  5'- cUGGUGgUCUUGGAGCUG-CU-UCUCg -3'
miRNA:   3'- aGCCACgAGAGCCUCGACuGGuAGAG- -5'
25966 5' -56.3 NC_005337.1 + 127669 0.72 0.557941
Target:  5'- -aGGUGCUCgagCuGAuGCUGACCGUCg- -3'
miRNA:   3'- agCCACGAGa--GcCU-CGACUGGUAGag -5'
25966 5' -56.3 NC_005337.1 + 88897 0.72 0.531758
Target:  5'- gUCGGUGgUCUCGcagguggucaacaccGuGCUGACCGUCg- -3'
miRNA:   3'- -AGCCACgAGAGC---------------CuCGACUGGUAGag -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.