miRNA display CGI


Results 1 - 12 of 12 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
9453 3' -52.8 NC_002531.1 + 118383 0.66 0.964806
Target:  5'- uCAAG-AGGUCCCcgaGGGACcaaaGGGGCc -3'
miRNA:   3'- uGUUCaUCCAGGGa--UCUUGag--CCCUG- -5'
9453 3' -52.8 NC_002531.1 + 120895 0.66 0.963429
Target:  5'- aACGAGUuaaauuacauaaGUCCCgAGuuCUCGGGACa -3'
miRNA:   3'- -UGUUCAuc----------CAGGGaUCuuGAGCCCUG- -5'
9453 3' -52.8 NC_002531.1 + 119564 0.67 0.949317
Target:  5'- uCAAGaGGG-CCCUgaGGGACUagaGGGGCc -3'
miRNA:   3'- uGUUCaUCCaGGGA--UCUUGAg--CCCUG- -5'
9453 3' -52.8 NC_002531.1 + 577 0.67 0.944832
Target:  5'- -------aGUCCCUAGAACcUGGGACc -3'
miRNA:   3'- uguucaucCAGGGAUCUUGaGCCCUG- -5'
9453 3' -52.8 NC_002531.1 + 13842 0.67 0.944832
Target:  5'- -aAAGUucAGGagaccugugCCCUGGAguacccccacguGCUCGGGACc -3'
miRNA:   3'- ugUUCA--UCCa--------GGGAUCU------------UGAGCCCUG- -5'
9453 3' -52.8 NC_002531.1 + 15507 0.67 0.944832
Target:  5'- uCAAaUAGG-CCCUuaauGGGCUCGGGGg -3'
miRNA:   3'- uGUUcAUCCaGGGAu---CUUGAGCCCUg -5'
9453 3' -52.8 NC_002531.1 + 35323 0.67 0.940095
Target:  5'- aACAGcga-GUCCCUGGAcauCUUGGGGCg -3'
miRNA:   3'- -UGUUcaucCAGGGAUCUu--GAGCCCUG- -5'
9453 3' -52.8 NC_002531.1 + 51013 0.68 0.918587
Target:  5'- gGCAAGUAGGcUUuuUGGAaaacACUCGguGGACg -3'
miRNA:   3'- -UGUUCAUCC-AGggAUCU----UGAGC--CCUG- -5'
9453 3' -52.8 NC_002531.1 + 129013 0.68 0.892996
Target:  5'- aGCAAGcccggAGGcuuugCgCCUAGAACUaCGGGAUa -3'
miRNA:   3'- -UGUUCa----UCCa----G-GGAUCUUGA-GCCCUG- -5'
9453 3' -52.8 NC_002531.1 + 42848 0.69 0.855536
Target:  5'- gGCuuGGaugGGGUCCCUGGAGCcaagGGGAUg -3'
miRNA:   3'- -UGu-UCa--UCCAGGGAUCUUGag--CCCUG- -5'
9453 3' -52.8 NC_002531.1 + 121062 0.71 0.775157
Target:  5'- -------uGUCCCgAGAACUCGGGACu -3'
miRNA:   3'- uguucaucCAGGGaUCUUGAGCCCUG- -5'
9453 3' -52.8 NC_002531.1 + 121098 1.1 0.003801
Target:  5'- aACAAGUAGGUCCCUAGAACUCGGGACa -3'
miRNA:   3'- -UGUUCAUCCAGGGAUCUUGAGCCCUG- -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.