miRNA display CGI


Results 1 - 19 of 19 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
10255 3' -61.2 NC_002686.1 + 106671 0.66 0.662623
Target:  5'- aCGGCcguCCCCGCAc-GGCCGGG-CgggaGUa -3'
miRNA:   3'- -GCCG---GGGGCGUuuCCGGUCCaGag--CG- -5'
10255 3' -61.2 NC_002686.1 + 121484 0.66 0.662623
Target:  5'- aCGGCcguCCCCGCAc-GGCCGGG-CgggaGUa -3'
miRNA:   3'- -GCCG---GGGGCGUuuCCGGUCCaGag--CG- -5'
10255 3' -61.2 NC_002686.1 + 104807 0.66 0.612668
Target:  5'- nCGGCgCCCGUcgcuccagugAAGGGCCGcGGgugcccggCUCGUc -3'
miRNA:   3'- -GCCGgGGGCG----------UUUCCGGU-CCa-------GAGCG- -5'
10255 3' -61.2 NC_002686.1 + 123348 0.66 0.612668
Target:  5'- nCGGCgCCCGUcgcuccagugAAGGGCCGcGGgugcccggCUCGUc -3'
miRNA:   3'- -GCCGgGGGCG----------UUUCCGGU-CCa-------GAGCG- -5'
10255 3' -61.2 NC_002686.1 + 123183 0.71 0.372845
Target:  5'- aCGGCCCCCGCGAggaugacggugaAGGCgcagcccCGGGUUgCGg -3'
miRNA:   3'- -GCCGGGGGCGUU------------UCCG-------GUCCAGaGCg -5'
10255 3' -61.2 NC_002686.1 + 104972 0.71 0.372845
Target:  5'- aCGGCCCCCGCGAggaugacggugaAGGCgcagcccCGGGUUgCGg -3'
miRNA:   3'- -GCCGGGGGCGUU------------UCCG-------GUCCAGaGCg -5'
10255 3' -61.2 NC_002686.1 + 122359 0.71 0.350267
Target:  5'- uGGCCUuuGCGGGGGCCGucgaauaucuGGgcuccaggCUCGCc -3'
miRNA:   3'- gCCGGGggCGUUUCCGGU----------CCa-------GAGCG- -5'
10255 3' -61.2 NC_002686.1 + 123323 0.71 0.350267
Target:  5'- cCGGCCCUCGCAGGuGGCCGaGaC-CGCg -3'
miRNA:   3'- -GCCGGGGGCGUUU-CCGGUcCaGaGCG- -5'
10255 3' -61.2 NC_002686.1 + 105796 0.71 0.350267
Target:  5'- uGGCCUuuGCGGGGGCCGucgaauaucuGGgcuccaggCUCGCc -3'
miRNA:   3'- gCCGGGggCGUUUCCGGU----------CCa-------GAGCG- -5'
10255 3' -61.2 NC_002686.1 + 104832 0.71 0.350267
Target:  5'- cCGGCCCUCGCAGGuGGCCGaGaC-CGCg -3'
miRNA:   3'- -GCCGGGGGCGUUU-CCGGUcCaGaGCG- -5'
10255 3' -61.2 NC_002686.1 + 32355 0.72 0.320752
Target:  5'- uGGCCCUUuUAGAGGCgGGGUUUaCGCg -3'
miRNA:   3'- gCCGGGGGcGUUUCCGgUCCAGA-GCG- -5'
10255 3' -61.2 NC_002686.1 + 105114 0.75 0.191589
Target:  5'- gCGGCCCUCGgGGAGGUagaCGGGUCgcaggggCGCg -3'
miRNA:   3'- -GCCGGGGGCgUUUCCG---GUCCAGa------GCG- -5'
10255 3' -61.2 NC_002686.1 + 123041 0.75 0.191589
Target:  5'- gCGGCCCUCGgGGAGGUagaCGGGUCgcaggggCGCg -3'
miRNA:   3'- -GCCGGGGGCgUUUCCG---GUCCAGa------GCG- -5'
10255 3' -61.2 NC_002686.1 + 122535 0.77 0.142289
Target:  5'- uGGCCUCgCGCAacuGAGGCC-GGUCUgGCa -3'
miRNA:   3'- gCCGGGG-GCGU---UUCCGGuCCAGAgCG- -5'
10255 3' -61.2 NC_002686.1 + 105620 0.77 0.142289
Target:  5'- uGGCCUCgCGCAacuGAGGCC-GGUCUgGCa -3'
miRNA:   3'- gCCGGGG-GCGU---UUCCGGuCCAGAgCG- -5'
10255 3' -61.2 NC_002686.1 + 104689 0.88 0.024467
Target:  5'- uCGGCCaCCUGCGAGGGCCGGGUCgucccacUCGCa -3'
miRNA:   3'- -GCCGG-GGGCGUUUCCGGUCCAG-------AGCG- -5'
10255 3' -61.2 NC_002686.1 + 123466 0.88 0.024467
Target:  5'- uCGGCCaCCUGCGAGGGCCGGGUCgucccacUCGCa -3'
miRNA:   3'- -GCCGG-GGGCGUUUCCGGUCCAG-------AGCG- -5'
10255 3' -61.2 NC_002686.1 + 105655 1.12 0.000496
Target:  5'- aCGGCCCCCGCAAAGGCCAGGUCUCGCg -3'
miRNA:   3'- -GCCGGGGGCGUUUCCGGUCCAGAGCG- -5'
10255 3' -61.2 NC_002686.1 + 122500 1.12 0.000496
Target:  5'- aCGGCCCCCGCAAAGGCCAGGUCUCGCg -3'
miRNA:   3'- -GCCGGGGGCGUUUCCGGUCCAGAGCG- -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.