miRNA display CGI


Results 1 - 18 of 18 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
12519 5' -55.1 NC_003345.1 + 73060 0.66 0.835703
Target:  5'- cUUGAaauUCgGUGGGAACGCCGCgagaacggUCgCCa -3'
miRNA:   3'- uAGCUc--AG-CACCCUUGUGGCGa-------AG-GG- -5'
12519 5' -55.1 NC_003345.1 + 67758 0.66 0.826944
Target:  5'- cAUCGAGUCGUGuGGG--ACUGaa-CCCa -3'
miRNA:   3'- -UAGCUCAGCAC-CCUugUGGCgaaGGG- -5'
12519 5' -55.1 NC_003345.1 + 22200 0.66 0.817991
Target:  5'- -cCGGGUCGUcaacGGGGuCGCCG-UUCUCg -3'
miRNA:   3'- uaGCUCAGCA----CCCUuGUGGCgAAGGG- -5'
12519 5' -55.1 NC_003345.1 + 49282 0.66 0.817991
Target:  5'- --gGGGUCGUGGGuucuucuaAGCGaggaCGCU-CCCg -3'
miRNA:   3'- uagCUCAGCACCC--------UUGUg---GCGAaGGG- -5'
12519 5' -55.1 NC_003345.1 + 14612 0.66 0.808852
Target:  5'- cUCGuGGUCGUGGGAGCGgucuggaGCgUUCCa -3'
miRNA:   3'- uAGC-UCAGCACCCUUGUgg-----CGaAGGG- -5'
12519 5' -55.1 NC_003345.1 + 28397 0.66 0.799537
Target:  5'- cAUUGAGUaCGuUGaGGAACACgGCgagcgUCCUg -3'
miRNA:   3'- -UAGCUCA-GC-AC-CCUUGUGgCGa----AGGG- -5'
12519 5' -55.1 NC_003345.1 + 69115 0.67 0.769647
Target:  5'- -aCGGGUCGUuccgGGGAACucgcccUCGCUcagcuucUCCCa -3'
miRNA:   3'- uaGCUCAGCA----CCCUUGu-----GGCGA-------AGGG- -5'
12519 5' -55.1 NC_003345.1 + 18503 0.67 0.760713
Target:  5'- -aCGAGUCG-GGaGGcCACCGCgaccUCCUc -3'
miRNA:   3'- uaGCUCAGCaCC-CUuGUGGCGa---AGGG- -5'
12519 5' -55.1 NC_003345.1 + 67251 0.67 0.760713
Target:  5'- --gGAGUgGUGGGAACgACCcCgaCCCg -3'
miRNA:   3'- uagCUCAgCACCCUUG-UGGcGaaGGG- -5'
12519 5' -55.1 NC_003345.1 + 32173 0.68 0.685176
Target:  5'- cUCGaAGUCGUGGGAagccgacguugacuACACCGa---CCg -3'
miRNA:   3'- uAGC-UCAGCACCCU--------------UGUGGCgaagGG- -5'
12519 5' -55.1 NC_003345.1 + 11412 0.69 0.639213
Target:  5'- cUgGAGcCGUGGGAACAagcgcaucauuuccuCCGCgacgaUUCCCu -3'
miRNA:   3'- uAgCUCaGCACCCUUGU---------------GGCG-----AAGGG- -5'
12519 5' -55.1 NC_003345.1 + 41586 0.71 0.549712
Target:  5'- cGUCG-GUCGUcGGGGAgagucCACuCGCUUCUCa -3'
miRNA:   3'- -UAGCuCAGCA-CCCUU-----GUG-GCGAAGGG- -5'
12519 5' -55.1 NC_003345.1 + 51650 0.72 0.488155
Target:  5'- cAUCGAGggGUGGGAuuuGCuCCGCUUCgaCCg -3'
miRNA:   3'- -UAGCUCagCACCCU---UGuGGCGAAG--GG- -5'
12519 5' -55.1 NC_003345.1 + 60221 0.72 0.448965
Target:  5'- -cCGAGUCGUGgcGGAACGCUcagGCUcagcucUCCCa -3'
miRNA:   3'- uaGCUCAGCAC--CCUUGUGG---CGA------AGGG- -5'
12519 5' -55.1 NC_003345.1 + 57730 0.73 0.402535
Target:  5'- uUCGGGUCGU--GAAC-CUGCUUCCCu -3'
miRNA:   3'- uAGCUCAGCAccCUUGuGGCGAAGGG- -5'
12519 5' -55.1 NC_003345.1 + 39688 0.74 0.376179
Target:  5'- cAUCGAGUCG-GGGAACGucCCGauaCCCg -3'
miRNA:   3'- -UAGCUCAGCaCCCUUGU--GGCgaaGGG- -5'
12519 5' -55.1 NC_003345.1 + 72305 0.74 0.359267
Target:  5'- cGUCGucGUCGUcGGGGcCACCGCcgCCCg -3'
miRNA:   3'- -UAGCu-CAGCA-CCCUuGUGGCGaaGGG- -5'
12519 5' -55.1 NC_003345.1 + 12847 1.11 0.0013
Target:  5'- cAUCGAGUCGUGGGAACACCGCUUCCCg -3'
miRNA:   3'- -UAGCUCAGCACCCUUGUGGCGAAGGG- -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.