miRNA display CGI


Results 1 - 20 of 30 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
23041 3' -54 NC_005178.1 + 439 0.66 0.662643
Target:  5'- uGCGGAUcGCUGagauaCugGAGGGguccaaGCCCu -3'
miRNA:   3'- -CGCCUAuCGACgc---GugCUUCUa-----CGGG- -5'
23041 3' -54 NC_005178.1 + 1487 0.79 0.116524
Target:  5'- cGCGGGccGGCUGCGgAacauCGAAGAUGUCCa -3'
miRNA:   3'- -CGCCUa-UCGACGCgU----GCUUCUACGGG- -5'
23041 3' -54 NC_005178.1 + 2986 0.69 0.494563
Target:  5'- cGCGGAUGGCUGCcgaGCGugcgcaGCCUg -3'
miRNA:   3'- -CGCCUAUCGACGcg-UGCuucua-CGGG- -5'
23041 3' -54 NC_005178.1 + 4422 0.73 0.307127
Target:  5'- cGCGGc--GCUGCGCGacCGGAGuUGCUCg -3'
miRNA:   3'- -CGCCuauCGACGCGU--GCUUCuACGGG- -5'
23041 3' -54 NC_005178.1 + 6622 0.81 0.08184
Target:  5'- -aGGAUcGCUGCGCACGGAGGcaaggGCCUg -3'
miRNA:   3'- cgCCUAuCGACGCGUGCUUCUa----CGGG- -5'
23041 3' -54 NC_005178.1 + 7709 0.66 0.673997
Target:  5'- aCGGGccAGCUcGCGCugGAGGucGCCg -3'
miRNA:   3'- cGCCUa-UCGA-CGCGugCUUCuaCGGg -5'
23041 3' -54 NC_005178.1 + 9541 0.69 0.516162
Target:  5'- cGCGGGaacgccaacgAGCgaaGCGCGAGcgcGAUGCCCu -3'
miRNA:   3'- -CGCCUa---------UCGacgCGUGCUU---CUACGGG- -5'
23041 3' -54 NC_005178.1 + 9580 0.66 0.685309
Target:  5'- uGCGccgcGCUGCGCugGgcGGUcGCCg -3'
miRNA:   3'- -CGCcuauCGACGCGugCuuCUA-CGGg -5'
23041 3' -54 NC_005178.1 + 10314 0.72 0.339911
Target:  5'- gGCGGAUAGCcgaggGCcggGCGCGGAGggGCg- -3'
miRNA:   3'- -CGCCUAUCGa----CG---CGUGCUUCuaCGgg -5'
23041 3' -54 NC_005178.1 + 12658 0.69 0.505313
Target:  5'- gGCGGccGGC-GCGCugGcGGGUGgCCu -3'
miRNA:   3'- -CGCCuaUCGaCGCGugCuUCUACgGG- -5'
23041 3' -54 NC_005178.1 + 12891 0.66 0.685309
Target:  5'- aGCGGcgAGCgGUGCcauaGGAGAcGCCg -3'
miRNA:   3'- -CGCCuaUCGaCGCGug--CUUCUaCGGg -5'
23041 3' -54 NC_005178.1 + 15021 0.66 0.673997
Target:  5'- uGCGGAUGGCgGCcucgacCACGuccAGGAcGCCUg -3'
miRNA:   3'- -CGCCUAUCGaCGc-----GUGC---UUCUaCGGG- -5'
23041 3' -54 NC_005178.1 + 16576 0.7 0.412794
Target:  5'- gGCGGggGGCgcgGCGUGCGucGAgguUGCCg -3'
miRNA:   3'- -CGCCuaUCGa--CGCGUGCuuCU---ACGGg -5'
23041 3' -54 NC_005178.1 + 18669 0.67 0.636432
Target:  5'- uGCuGGAUAGCUGCGUAgcuAGAUuggaaccgaucugcGCCUg -3'
miRNA:   3'- -CG-CCUAUCGACGCGUgcuUCUA--------------CGGG- -5'
23041 3' -54 NC_005178.1 + 22381 1.14 0.000375
Target:  5'- gGCGGAUAGCUGCGCACGAAGAUGCCCu -3'
miRNA:   3'- -CGCCUAUCGACGCGUGCUUCUACGGG- -5'
23041 3' -54 NC_005178.1 + 23227 0.67 0.605643
Target:  5'- cUGGucgAGCgcaucCGCGCcGAGGUGCCCg -3'
miRNA:   3'- cGCCua-UCGac---GCGUGcUUCUACGGG- -5'
23041 3' -54 NC_005178.1 + 24450 0.73 0.307127
Target:  5'- aCGGucGGCUGCgGCGCGguGAacaUGCCCa -3'
miRNA:   3'- cGCCuaUCGACG-CGUGCuuCU---ACGGG- -5'
23041 3' -54 NC_005178.1 + 24796 0.66 0.696565
Target:  5'- gGUGGGUgAGCUGCuCuuCGAAGGUcaGCUCg -3'
miRNA:   3'- -CGCCUA-UCGACGcGu-GCUUCUA--CGGG- -5'
23041 3' -54 NC_005178.1 + 25137 0.66 0.651258
Target:  5'- aGCGGccgAGCUGguCGCGCu--GGUGUCCu -3'
miRNA:   3'- -CGCCua-UCGAC--GCGUGcuuCUACGGG- -5'
23041 3' -54 NC_005178.1 + 25519 0.7 0.451651
Target:  5'- aGCGGAUGGCaggaaagcgcccgUGCGCAaucggcguCGAuGaAUGCCUa -3'
miRNA:   3'- -CGCCUAUCG-------------ACGCGU--------GCUuC-UACGGG- -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.