miRNA display CGI


Results 1 - 15 of 15 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
22099 5' -62.2 NC_004927.1 + 38322 0.66 0.537557
Target:  5'- -aGCCGAaucuucucccaauCCGGGGAGcCGu--CCGGGu -3'
miRNA:   3'- ccCGGCU-------------GGCCCCUCuGCcuuGGCCC- -5'
22099 5' -62.2 NC_004927.1 + 52453 0.67 0.453902
Target:  5'- aGGGCaaccCGACCGGaGaGGGCGGGACaaaaGGa -3'
miRNA:   3'- -CCCG----GCUGGCC-CcUCUGCCUUGg---CCc -5'
22099 5' -62.2 NC_004927.1 + 75673 0.68 0.410103
Target:  5'- aGGGUacaagcccgagCGACgGGGGAcAgGGGACgGGGg -3'
miRNA:   3'- -CCCG-----------GCUGgCCCCUcUgCCUUGgCCC- -5'
22099 5' -62.2 NC_004927.1 + 156 0.68 0.410103
Target:  5'- aGGGUacaagcccgagCGACgGGGGAcAgGGGACgGGGg -3'
miRNA:   3'- -CCCG-----------GCUGgCCCCUcUgCCUUGgCCC- -5'
22099 5' -62.2 NC_004927.1 + 31107 0.68 0.401663
Target:  5'- --cCCGACCGGGGA-ACGGAuguucgucgUCGGGg -3'
miRNA:   3'- cccGGCUGGCCCCUcUGCCUu--------GGCCC- -5'
22099 5' -62.2 NC_004927.1 + 915 0.68 0.392508
Target:  5'- cGGUCGGCCcguaacaGGGGc--CGGAACCGGa -3'
miRNA:   3'- cCCGGCUGG-------CCCCucuGCCUUGGCCc -5'
22099 5' -62.2 NC_004927.1 + 75843 0.68 0.385118
Target:  5'- cGGGCagggGGCgGGGGgagAGACGGcccGCgCGGGg -3'
miRNA:   3'- -CCCGg---CUGgCCCC---UCUGCCu--UG-GCCC- -5'
22099 5' -62.2 NC_004927.1 + 326 0.68 0.385118
Target:  5'- cGGGCagggGGCgGGGGgagAGACGGcccGCgCGGGg -3'
miRNA:   3'- -CCCGg---CUGgCCCC---UCUGCCu--UG-GCCC- -5'
22099 5' -62.2 NC_004927.1 + 3020 0.69 0.330867
Target:  5'- aGGCCcuuCCGGGGAGucgaacccCGGAGCCGc- -3'
miRNA:   3'- cCCGGcu-GGCCCCUCu-------GCCUUGGCcc -5'
22099 5' -62.2 NC_004927.1 + 59026 0.7 0.323592
Target:  5'- gGGGgCGAuuCCGGuGGAGAC---ACCGGGa -3'
miRNA:   3'- -CCCgGCU--GGCC-CCUCUGccuUGGCCC- -5'
22099 5' -62.2 NC_004927.1 + 1365 0.71 0.264722
Target:  5'- cGGGCCGuacuucaaacguaacACCGGGaaacacguuCGGGGCCGGGc -3'
miRNA:   3'- -CCCGGC---------------UGGCCCcucu-----GCCUUGGCCC- -5'
22099 5' -62.2 NC_004927.1 + 35287 0.71 0.257403
Target:  5'- -cGCCGA-UGGGGAGAacGAACCGGGc -3'
miRNA:   3'- ccCGGCUgGCCCCUCUgcCUUGGCCC- -5'
22099 5' -62.2 NC_004927.1 + 441 0.72 0.217968
Target:  5'- gGGGagaGACgGGGaGAGACGGAcggaACCGGa -3'
miRNA:   3'- -CCCgg-CUGgCCC-CUCUGCCU----UGGCCc -5'
22099 5' -62.2 NC_004927.1 + 75798 0.78 0.09509
Target:  5'- gGGGCCGACCGGcccgaGAGACGG-GCaGGGg -3'
miRNA:   3'- -CCCGGCUGGCCc----CUCUGCCuUGgCCC- -5'
22099 5' -62.2 NC_004927.1 + 281 0.78 0.09509
Target:  5'- gGGGCCGACCGGcccgaGAGACGG-GCaGGGg -3'
miRNA:   3'- -CCCGGCUGGCCc----CUCUGCCuUGgCCC- -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.