miRNA display CGI


Results 1 - 20 of 33 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
5317 3' -60.8 NC_001798.1 + 29980 0.66 0.715012
Target:  5'- --cGGGGgACccccgugggccgUGCGCcGCCCCCCgacCCu -3'
miRNA:   3'- ugaCCCCaUG------------ACGUGaCGGGGGGa--GG- -5'
5317 3' -60.8 NC_001798.1 + 72334 0.66 0.69945
Target:  5'- --gGGGGUGCUGCaggagcucgccgagcGCgccGaCCCCCUggUCCg -3'
miRNA:   3'- ugaCCCCAUGACG---------------UGa--C-GGGGGG--AGG- -5'
5317 3' -60.8 NC_001798.1 + 81279 0.66 0.695537
Target:  5'- uGCgggGGGGgaugGCggaucggGUcccgaggaccccGCUGCCCCCC-CCg -3'
miRNA:   3'- -UGa--CCCCa---UGa------CG------------UGACGGGGGGaGG- -5'
5317 3' -60.8 NC_001798.1 + 50396 0.66 0.679809
Target:  5'- --gGGGGUaggaugugcgaccggGCgGCGC-GCCCCCCcCCc -3'
miRNA:   3'- ugaCCCCA---------------UGaCGUGaCGGGGGGaGG- -5'
5317 3' -60.8 NC_001798.1 + 122362 0.66 0.675861
Target:  5'- gGCgUGGGGcggGCgacGCGCccGCCCCCCgcggcuguccUCCg -3'
miRNA:   3'- -UG-ACCCCa--UGa--CGUGa-CGGGGGG----------AGG- -5'
5317 3' -60.8 NC_001798.1 + 76820 0.66 0.665969
Target:  5'- --aGGGGUcCUGCg--GCCCCUC-CCg -3'
miRNA:   3'- ugaCCCCAuGACGugaCGGGGGGaGG- -5'
5317 3' -60.8 NC_001798.1 + 90727 0.66 0.665969
Target:  5'- --cGGGGcACgGCACUGCaggugccgaUCCaCCUCCg -3'
miRNA:   3'- ugaCCCCaUGaCGUGACG---------GGG-GGAGG- -5'
5317 3' -60.8 NC_001798.1 + 80551 0.66 0.665969
Target:  5'- gGCgGGGGg---GCGCgagGCgUCCCUCCc -3'
miRNA:   3'- -UGaCCCCaugaCGUGa--CGgGGGGAGG- -5'
5317 3' -60.8 NC_001798.1 + 128157 0.67 0.656051
Target:  5'- cCUGcGcGGccUGCUGCGCggcguccGCUCCCCUCUg -3'
miRNA:   3'- uGAC-C-CC--AUGACGUGa------CGGGGGGAGG- -5'
5317 3' -60.8 NC_001798.1 + 32476 0.67 0.646114
Target:  5'- cACgGGGG-ACUGC-CUGCCCgUCCUg- -3'
miRNA:   3'- -UGaCCCCaUGACGuGACGGG-GGGAgg -5'
5317 3' -60.8 NC_001798.1 + 27608 0.67 0.636167
Target:  5'- --aGGGGgcgcgcgggGCUGCcCUGCCgCCCgcccgCCg -3'
miRNA:   3'- ugaCCCCa--------UGACGuGACGGgGGGa----GG- -5'
5317 3' -60.8 NC_001798.1 + 148851 0.67 0.606338
Target:  5'- -gUGGGGgcgGCUucucGUGCccGcCCCCCCUCCu -3'
miRNA:   3'- ugACCCCa--UGA----CGUGa-C-GGGGGGAGG- -5'
5317 3' -60.8 NC_001798.1 + 105208 0.68 0.557068
Target:  5'- -gUGGGcG-ACgGCGCUGCCCcguccgcagcgCCCUCCc -3'
miRNA:   3'- ugACCC-CaUGaCGUGACGGG-----------GGGAGG- -5'
5317 3' -60.8 NC_001798.1 + 60213 0.68 0.557068
Target:  5'- cCUGGgcgcuGGUGCUGgACgacgcGCCCUCCUCg -3'
miRNA:   3'- uGACC-----CCAUGACgUGa----CGGGGGGAGg -5'
5317 3' -60.8 NC_001798.1 + 126857 0.68 0.557068
Target:  5'- aGCUGGcGUccCUGCGCgcgaccaCCCCCUCCg -3'
miRNA:   3'- -UGACCcCAu-GACGUGacg----GGGGGAGG- -5'
5317 3' -60.8 NC_001798.1 + 49265 0.69 0.537661
Target:  5'- gACUGGGGggaUGCGCacGUCCCCgagcgCUCCc -3'
miRNA:   3'- -UGACCCCaugACGUGa-CGGGGG-----GAGG- -5'
5317 3' -60.8 NC_001798.1 + 75188 0.69 0.518493
Target:  5'- cGCUGGGGgcc--CGCcGCCCCCCggagCCc -3'
miRNA:   3'- -UGACCCCaugacGUGaCGGGGGGa---GG- -5'
5317 3' -60.8 NC_001798.1 + 148595 0.69 0.518493
Target:  5'- cCUGGcuucgcgccGGUGgUGCgGCUGacccCCCCCCUCCu -3'
miRNA:   3'- uGACC---------CCAUgACG-UGAC----GGGGGGAGG- -5'
5317 3' -60.8 NC_001798.1 + 124003 0.69 0.50901
Target:  5'- cCUGGGGU-C-GCuCUGUCCCCCgggcagCCg -3'
miRNA:   3'- uGACCCCAuGaCGuGACGGGGGGa-----GG- -5'
5317 3' -60.8 NC_001798.1 + 15262 0.69 0.49027
Target:  5'- --gGGGGUACggGCGgUGCCCCgggUUCCg -3'
miRNA:   3'- ugaCCCCAUGa-CGUgACGGGGg--GAGG- -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.