miRNA display CGI


Results 1 - 20 of 22 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
24567 3' -53.6 NC_005264.1 + 99875 0.66 0.967559
Target:  5'- aGGGCuGGGCgaguccGGACGCua-AAGCGUCg -3'
miRNA:   3'- -CUUG-UCCGa-----CCUGCGuacUUCGCAGa -5'
24567 3' -53.6 NC_005264.1 + 34183 0.66 0.964283
Target:  5'- -cACAGcuGCUGGACagcagccgcgGCAUGGAGCG-Ca -3'
miRNA:   3'- cuUGUC--CGACCUG----------CGUACUUCGCaGa -5'
24567 3' -53.6 NC_005264.1 + 33210 0.66 0.964283
Target:  5'- ---aAGGCUGGcgGCGCuc--GGCGUCUa -3'
miRNA:   3'- cuugUCCGACC--UGCGuacuUCGCAGA- -5'
24567 3' -53.6 NC_005264.1 + 127250 0.66 0.964283
Target:  5'- uGAAgAGGCggaGGGCGCgGUGgcGcCGUCg -3'
miRNA:   3'- -CUUgUCCGa--CCUGCG-UACuuC-GCAGa -5'
24567 3' -53.6 NC_005264.1 + 154802 0.66 0.964283
Target:  5'- uGAAgAGGCggaGGGCGCgGUGgcGcCGUCg -3'
miRNA:   3'- -CUUgUCCGa--CCUGCG-UACuuC-GCAGa -5'
24567 3' -53.6 NC_005264.1 + 103509 0.66 0.960781
Target:  5'- cGACAGGCuguucauguacaUGGACGUGUcGAGCG-CUa -3'
miRNA:   3'- cUUGUCCG------------ACCUGCGUAcUUCGCaGA- -5'
24567 3' -53.6 NC_005264.1 + 40009 0.66 0.957049
Target:  5'- cAGCAGGCUccaucuaggcGGAUGCGUGccGCG-Ca -3'
miRNA:   3'- cUUGUCCGA----------CCUGCGUACuuCGCaGa -5'
24567 3' -53.6 NC_005264.1 + 119871 0.66 0.957049
Target:  5'- gGAGCGGGgagggggGGGCGCGUG-AGCcUCUa -3'
miRNA:   3'- -CUUGUCCga-----CCUGCGUACuUCGcAGA- -5'
24567 3' -53.6 NC_005264.1 + 162182 0.66 0.957049
Target:  5'- gGAGCGGGgagggggGGGCGCGUG-AGCcUCUa -3'
miRNA:   3'- -CUUGUCCga-----CCUGCGUACuUCGcAGA- -5'
24567 3' -53.6 NC_005264.1 + 52525 0.66 0.957049
Target:  5'- cGAACAGGCUGG-UGUu---AGUGUCc -3'
miRNA:   3'- -CUUGUCCGACCuGCGuacuUCGCAGa -5'
24567 3' -53.6 NC_005264.1 + 154904 0.67 0.944425
Target:  5'- gGAACGGGCUGaggaGACGCc-GAGGUcggGUCUg -3'
miRNA:   3'- -CUUGUCCGAC----CUGCGuaCUUCG---CAGA- -5'
24567 3' -53.6 NC_005264.1 + 127149 0.67 0.944425
Target:  5'- gGAACGGGCUGaggaGACGCc-GAGGUcggGUCUg -3'
miRNA:   3'- -CUUGUCCGAC----CUGCGuaCUUCG---CAGA- -5'
24567 3' -53.6 NC_005264.1 + 133855 0.67 0.936793
Target:  5'- cGAGCAGGCgUuccucuagcuccccaGGugGCGUGcAAGUGUUg -3'
miRNA:   3'- -CUUGUCCG-A---------------CCugCGUAC-UUCGCAGa -5'
24567 3' -53.6 NC_005264.1 + 52637 0.67 0.933254
Target:  5'- cGAC-GGC-GGGCGCAUGcugacgcugcucaaAAGCGUCg -3'
miRNA:   3'- cUUGuCCGaCCUGCGUAC--------------UUCGCAGa -5'
24567 3' -53.6 NC_005264.1 + 37873 0.67 0.924149
Target:  5'- cGGGCguGGGCUGcGAUGCuuGUGggGCGcCg -3'
miRNA:   3'- -CUUG--UCCGAC-CUGCG--UACuuCGCaGa -5'
24567 3' -53.6 NC_005264.1 + 112150 0.68 0.912512
Target:  5'- cGAACAGGCgcguccauccGGGCGCuUGGAGgGaUCUu -3'
miRNA:   3'- -CUUGUCCGa---------CCUGCGuACUUCgC-AGA- -5'
24567 3' -53.6 NC_005264.1 + 111667 0.68 0.90632
Target:  5'- cGACAGGaaGGGCGC----AGCGUCUg -3'
miRNA:   3'- cUUGUCCgaCCUGCGuacuUCGCAGA- -5'
24567 3' -53.6 NC_005264.1 + 254 0.69 0.879128
Target:  5'- cGGCGGcGCUGGACGCGgcaGAAGCc--- -3'
miRNA:   3'- cUUGUC-CGACCUGCGUa--CUUCGcaga -5'
24567 3' -53.6 NC_005264.1 + 97941 0.69 0.848263
Target:  5'- -uGCGGGCUGG-CGCAUcuGGaCGUCa -3'
miRNA:   3'- cuUGUCCGACCuGCGUAcuUC-GCAGa -5'
24567 3' -53.6 NC_005264.1 + 72583 0.72 0.738141
Target:  5'- cGAUAuGGCUGGGCGCGcgaUGAAGUGcUCg -3'
miRNA:   3'- cUUGU-CCGACCUGCGU---ACUUCGC-AGa -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.