miRNA display CGI


Results 1 - 10 of 10 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
11887 3' -52.4 NC_003266.2 + 11898 0.66 0.777731
Target:  5'- gGCUUCcaagacccggcgGCUGGGCUGCCAGugcagguccGCGcCCAu -3'
miRNA:   3'- -CGGAG------------CGACUUGAUGGUCu--------UGCuGGU- -5'
11887 3' -52.4 NC_003266.2 + 26314 0.66 0.756384
Target:  5'- cGCCUuacaUGUgGAGCUACCagccccAGAugGGCCu -3'
miRNA:   3'- -CGGA----GCGaCUUGAUGG------UCUugCUGGu -5'
11887 3' -52.4 NC_003266.2 + 13028 0.67 0.716618
Target:  5'- cGCC-CGUuuauuaauaagcugaUGGACUACCugcaucGGGCGGCCGc -3'
miRNA:   3'- -CGGaGCG---------------ACUUGAUGGu-----CUUGCUGGU- -5'
11887 3' -52.4 NC_003266.2 + 2910 0.67 0.66645
Target:  5'- aGCCUCGgacGAgcgcgGCUACCAGAugcUGACCu -3'
miRNA:   3'- -CGGAGCga-CU-----UGAUGGUCUu--GCUGGu -5'
11887 3' -52.4 NC_003266.2 + 12795 0.68 0.631783
Target:  5'- aGCCgCGCccuug-GCCAGGACGACCc -3'
miRNA:   3'- -CGGaGCGacuugaUGGUCUUGCUGGu -5'
11887 3' -52.4 NC_003266.2 + 15767 0.69 0.597116
Target:  5'- aGCCUUGCUGcGCaggGCCAGGcgcacgggacgcAgGGCCAu -3'
miRNA:   3'- -CGGAGCGACuUGa--UGGUCU------------UgCUGGU- -5'
11887 3' -52.4 NC_003266.2 + 4969 0.7 0.494797
Target:  5'- cGCCUCGCUccagGAGCU-CCucucgcugggcggAGAGCGACUc -3'
miRNA:   3'- -CGGAGCGA----CUUGAuGG-------------UCUUGCUGGu -5'
11887 3' -52.4 NC_003266.2 + 14555 0.76 0.247134
Target:  5'- gGCCUCGUUGGugUAcaccCCGGGcAUGACCAg -3'
miRNA:   3'- -CGGAGCGACUugAU----GGUCU-UGCUGGU- -5'
11887 3' -52.4 NC_003266.2 + 20244 0.78 0.176847
Target:  5'- cCCUCGCUGGGCU-CCGGGuuCGACCc -3'
miRNA:   3'- cGGAGCGACUUGAuGGUCUu-GCUGGu -5'
11887 3' -52.4 NC_003266.2 + 14025 1.11 0.000816
Target:  5'- cGCCUCGCUGAACUACCAGAACGACCAc -3'
miRNA:   3'- -CGGAGCGACUUGAUGGUCUUGCUGGU- -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.