miRNA display CGI


Results 1 - 20 of 83 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
18254 3' -54.5 NC_004681.1 + 4842 1.1 0.001089
Target:  5'- cAGGCGCUAAAGCAGAAGCGCGCCAACg -3'
miRNA:   3'- -UCCGCGAUUUCGUCUUCGCGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 61171 0.69 0.630439
Target:  5'- cGGgGUc--GGCGGucAGCGUGCCGACg -3'
miRNA:   3'- uCCgCGauuUCGUCu-UCGCGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 43914 0.68 0.652526
Target:  5'- uGGUGCcguAGCGGggGUggGCGCgGACc -3'
miRNA:   3'- uCCGCGauuUCGUCuuCG--CGCGgUUG- -5'
18254 3' -54.5 NC_004681.1 + 33673 0.66 0.808657
Target:  5'- -uGCGCUucgccgcgggaguGAAGCGcucGAAGagcgGCGCCAACa -3'
miRNA:   3'- ucCGCGA-------------UUUCGU---CUUCg---CGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 34668 0.73 0.366128
Target:  5'- gAGGCGCacaagccgaaGAAGUccacaccgaAGAAGCGCGCCAccGCg -3'
miRNA:   3'- -UCCGCGa---------UUUCG---------UCUUCGCGCGGU--UG- -5'
18254 3' -54.5 NC_004681.1 + 70871 0.72 0.420699
Target:  5'- cGGaGCUGAGGCGG-AGCGCuaucaaacucaaGCCAGCu -3'
miRNA:   3'- uCCgCGAUUUCGUCuUCGCG------------CGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 68674 0.71 0.479901
Target:  5'- uGGCccGCUGucGCuccAGGCGUGCCAGCa -3'
miRNA:   3'- uCCG--CGAUuuCGuc-UUCGCGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 42528 0.71 0.510991
Target:  5'- cGGGuCGUgcAGGCu---GCGCGCCGACg -3'
miRNA:   3'- -UCC-GCGauUUCGucuuCGCGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 60139 0.69 0.608357
Target:  5'- cGGUGCcAGGuGCGGGAGC-CGCCGAa -3'
miRNA:   3'- uCCGCGaUUU-CGUCUUCGcGCGGUUg -5'
18254 3' -54.5 NC_004681.1 + 73106 0.69 0.630439
Target:  5'- gGGGCGUacugcGCAGAGcaCGCGCCAAUc -3'
miRNA:   3'- -UCCGCGauuu-CGUCUUc-GCGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 35744 0.69 0.608357
Target:  5'- cGGCGggAuuucguGUgucgGGAAGCGCGCCGAUg -3'
miRNA:   3'- uCCGCgaUuu----CG----UCUUCGCGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 5943 0.69 0.607255
Target:  5'- cAGGCGCUGcugagccucgGGGCuGAGGCGCuucucguGCCGc- -3'
miRNA:   3'- -UCCGCGAU----------UUCGuCUUCGCG-------CGGUug -5'
18254 3' -54.5 NC_004681.1 + 2434 0.77 0.227142
Target:  5'- uGGCGCgcggcacGCAGAAGUggGCGCCGACc -3'
miRNA:   3'- uCCGCGauuu---CGUCUUCG--CGCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 4516 0.69 0.619392
Target:  5'- cAGGCgguccaguuugGCUAGGGCAGAcucuggaauccAGUGuCGCCAAa -3'
miRNA:   3'- -UCCG-----------CGAUUUCGUCU-----------UCGC-GCGGUUg -5'
18254 3' -54.5 NC_004681.1 + 64184 0.76 0.258744
Target:  5'- -aGCGgUGAAGCAGAGuGCGCGCUAGg -3'
miRNA:   3'- ucCGCgAUUUCGUCUU-CGCGCGGUUg -5'
18254 3' -54.5 NC_004681.1 + 47162 0.7 0.542887
Target:  5'- cGGCGUUccuGGCGGGGuGCGCGCUcguGCa -3'
miRNA:   3'- uCCGCGAuu-UCGUCUU-CGCGCGGu--UG- -5'
18254 3' -54.5 NC_004681.1 + 36903 0.69 0.627124
Target:  5'- cGGCGacaaagaggacugcCUAGucAGCgGGggGCGgGCCAGCg -3'
miRNA:   3'- uCCGC--------------GAUU--UCG-UCuuCGCgCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 14577 0.68 0.641487
Target:  5'- cAGcGCGCccugcucGGCGGAggcGGCGCGCgCGGCg -3'
miRNA:   3'- -UC-CGCGauu----UCGUCU---UCGCGCG-GUUG- -5'
18254 3' -54.5 NC_004681.1 + 40860 0.74 0.349055
Target:  5'- cGGCGCUGGGGauaAGAGGgauCGCCAGCa -3'
miRNA:   3'- uCCGCGAUUUCg--UCUUCgc-GCGGUUG- -5'
18254 3' -54.5 NC_004681.1 + 46192 0.72 0.459696
Target:  5'- aAGGCGCUu--GUugAGGAGCGCggcuucgcgGCCGACu -3'
miRNA:   3'- -UCCGCGAuuuCG--UCUUCGCG---------CGGUUG- -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.