miRNA display CGI


Results 1 - 20 of 37 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
28043 3' -56.1 NC_005887.1 + 18549 0.78 0.118549
Target:  5'- gGUGGgCGgCGgcgCCGGCUUCGCGGGCGa -3'
miRNA:   3'- -CAUCgGCaGCa--GGCUGAAGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 29498 0.66 0.616807
Target:  5'- cGUAGCCGgCGgccUCGACg--GCGGGCGc -3'
miRNA:   3'- -CAUCGGCaGCa--GGCUGaagCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 12913 0.66 0.616807
Target:  5'- -gAGCCagcaCG-CCGGUUUCGCGAGCGc -3'
miRNA:   3'- caUCGGca--GCaGGCUGAAGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 38094 0.66 0.616807
Target:  5'- --uGCuCGUCGcgcuugCCGuGCUccaUCGCGAGCAg -3'
miRNA:   3'- cauCG-GCAGCa-----GGC-UGA---AGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 20642 0.66 0.605688
Target:  5'- cGUGGCCGgacUGUCUG---UUGCGGGCAc -3'
miRNA:   3'- -CAUCGGCa--GCAGGCugaAGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 28716 0.66 0.594592
Target:  5'- cGUAGUCGUCGaaCGACacgCGCGcGCu -3'
miRNA:   3'- -CAUCGGCAGCagGCUGaa-GCGCuCGu -5'
28043 3' -56.1 NC_005887.1 + 34287 0.66 0.583529
Target:  5'- --uGCCGUCG-CCGugcgGCUgacUGCGGGCGg -3'
miRNA:   3'- cauCGGCAGCaGGC----UGAa--GCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 24421 0.67 0.539773
Target:  5'- -gAGCuCGuUCGUgCGcACgcaggUCGCGAGCAg -3'
miRNA:   3'- caUCG-GC-AGCAgGC-UGa----AGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 36965 0.67 0.528998
Target:  5'- ---uCCGUCGUCuCGGCgucgCGCGGGUc -3'
miRNA:   3'- caucGGCAGCAG-GCUGaa--GCGCUCGu -5'
28043 3' -56.1 NC_005887.1 + 34705 0.67 0.528998
Target:  5'- -cGGCCGUCGUCgCGcuuGCggugCGCG-GCGa -3'
miRNA:   3'- caUCGGCAGCAG-GC---UGaa--GCGCuCGU- -5'
28043 3' -56.1 NC_005887.1 + 34939 0.75 0.184703
Target:  5'- --uGCCGUCG-CCGGCUUCgaacucgGCGGGCGu -3'
miRNA:   3'- cauCGGCAGCaGGCUGAAG-------CGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 26572 0.72 0.259813
Target:  5'- --uGCCGUCGUCCuccugcuuguagacGGCgccgUUCGCGAGCu -3'
miRNA:   3'- cauCGGCAGCAGG--------------CUG----AAGCGCUCGu -5'
28043 3' -56.1 NC_005887.1 + 26705 0.71 0.328797
Target:  5'- -cAGCCGUCG-CgCGGC--CGCGGGCAg -3'
miRNA:   3'- caUCGGCAGCaG-GCUGaaGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 13858 0.7 0.345294
Target:  5'- ---cCCGUCG-CUGACUUCGUGaAGCAg -3'
miRNA:   3'- caucGGCAGCaGGCUGAAGCGC-UCGU- -5'
28043 3' -56.1 NC_005887.1 + 25094 0.69 0.407587
Target:  5'- --cGCCGcCGUCgGAUUUCGCGAcCGg -3'
miRNA:   3'- cauCGGCaGCAGgCUGAAGCGCUcGU- -5'
28043 3' -56.1 NC_005887.1 + 35067 0.68 0.446199
Target:  5'- --uGCCGUCGUCggcgggcgCGACUUCGaagucgucuuCGGGCGg -3'
miRNA:   3'- cauCGGCAGCAG--------GCUGAAGC----------GCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 17793 0.68 0.486767
Target:  5'- cGUGGCUGUCGUCgcaggGGCUgaUCGcCGAGUc -3'
miRNA:   3'- -CAUCGGCAGCAGg----CUGA--AGC-GCUCGu -5'
28043 3' -56.1 NC_005887.1 + 19604 1.08 0.000691
Target:  5'- uGUAGCCGUCGUCCGACUUCGCGAGCAg -3'
miRNA:   3'- -CAUCGGCAGCAGGCUGAAGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 9828 0.66 0.616807
Target:  5'- cGUGGCCGgauaugcCGUUCGAgcagauggagcUUUUGUGAGCGg -3'
miRNA:   3'- -CAUCGGCa------GCAGGCU-----------GAAGCGCUCGU- -5'
28043 3' -56.1 NC_005887.1 + 3337 0.66 0.594592
Target:  5'- -aAGCCGcCGU-CGACUgCGCGguGGCAc -3'
miRNA:   3'- caUCGGCaGCAgGCUGAaGCGC--UCGU- -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.