miRNA display CGI


Results 1 - 7 of 7 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
4340 5' -53.9 NC_001720.1 + 8289 0.69 0.543678
Target:  5'- gGGGCa-UGGGGUGGGUGAGGGcggaagcguacauGCCGc -3'
miRNA:   3'- -UCCGgaACUCCGCCCAUUUUC-------------UGGUc -5'
4340 5' -53.9 NC_001720.1 + 23502 0.69 0.544788
Target:  5'- cGGUCUcUGGGGUGGG--AGAGGCCu- -3'
miRNA:   3'- uCCGGA-ACUCCGCCCauUUUCUGGuc -5'
4340 5' -53.9 NC_001720.1 + 22387 0.67 0.635213
Target:  5'- -cGCCUUGGcGGCGucGG-AAAAGACCAu -3'
miRNA:   3'- ucCGGAACU-CCGC--CCaUUUUCUGGUc -5'
4340 5' -53.9 NC_001720.1 + 38548 0.67 0.64661
Target:  5'- -cGCCUUGGGGCGuGGUuu-GGGCg-- -3'
miRNA:   3'- ucCGGAACUCCGC-CCAuuuUCUGguc -5'
4340 5' -53.9 NC_001720.1 + 27554 0.66 0.669352
Target:  5'- cGGCCgUUGguuagaGGGCGGaGcAGAAGACCGc -3'
miRNA:   3'- uCCGG-AAC------UCCGCC-CaUUUUCUGGUc -5'
4340 5' -53.9 NC_001720.1 + 20278 1.08 0.001036
Target:  5'- gAGGCCUUGAGGCGGGUAAAAGACCAGc -3'
miRNA:   3'- -UCCGGAACUCCGCCCAUUUUCUGGUC- -5'
4340 5' -53.9 NC_001720.1 + 32615 0.71 0.390058
Target:  5'- uGGCCUgguucacGGGGCGGGaacuGGACCGu -3'
miRNA:   3'- uCCGGAa------CUCCGCCCauuuUCUGGUc -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.