miRNA display CGI


Results 1 - 20 of 34 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
16232 3' -56.9 NC_004065.1 + 226884 1.06 0.005344
Target:  5'- uAGAAACUUGGCCCGGGACCGCGGAAAg -3'
miRNA:   3'- -UCUUUGAACCGGGCCCUGGCGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 67503 0.75 0.491781
Target:  5'- cGAGACcUGGCCCGGcGGCUcguGCGGAu- -3'
miRNA:   3'- uCUUUGaACCGGGCC-CUGG---CGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 137539 0.74 0.500229
Target:  5'- cGGGACUuccggucagccucUGGCCCGGcacaucGCCGCGGAAGg -3'
miRNA:   3'- uCUUUGA-------------ACCGGGCCc-----UGGCGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 176481 0.73 0.588634
Target:  5'- cAGAGGCggaGGCaCCGGGACgGUGGGu- -3'
miRNA:   3'- -UCUUUGaa-CCG-GGCCCUGgCGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 4219 0.72 0.61854
Target:  5'- -aGGACcaGGCCUGGG-CCGCGGGGAc -3'
miRNA:   3'- ucUUUGaaCCGGGCCCuGGCGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 66127 0.7 0.746469
Target:  5'- cGAGGCgcUGGCgCGcuGGGCCGCGGAc- -3'
miRNA:   3'- uCUUUGa-ACCGgGC--CCUGGCGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 136505 0.7 0.755878
Target:  5'- gGGGAGC-UGGUCCGGGaaGCCagGCGGGu- -3'
miRNA:   3'- -UCUUUGaACCGGGCCC--UGG--CGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 179666 0.7 0.755878
Target:  5'- aGGAugacAGCgggggGGCUCGGGAUCGCGGc-- -3'
miRNA:   3'- -UCU----UUGaa---CCGGGCCCUGGCGCCuuu -5'
16232 3' -56.9 NC_004065.1 + 83206 0.69 0.801185
Target:  5'- gGGAAAUUcgGGCCCGGGcaggcacauCCGCaGGAc- -3'
miRNA:   3'- -UCUUUGAa-CCGGGCCCu--------GGCG-CCUuu -5'
16232 3' -56.9 NC_004065.1 + 172080 0.69 0.818343
Target:  5'- aGGggGCUgugGGUggaGGGGCCGgGGGAGg -3'
miRNA:   3'- -UCuuUGAa--CCGgg-CCCUGGCgCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 168614 0.68 0.842851
Target:  5'- cAGAAGCggcugcUGGCgCUGGuGCCGCGGGc- -3'
miRNA:   3'- -UCUUUGa-----ACCG-GGCCcUGGCGCCUuu -5'
16232 3' -56.9 NC_004065.1 + 139006 0.68 0.842851
Target:  5'- cGGGACggUGGCCauGGACCGCGucaaGAAGa -3'
miRNA:   3'- uCUUUGa-ACCGGgcCCUGGCGC----CUUU- -5'
16232 3' -56.9 NC_004065.1 + 222731 0.68 0.858288
Target:  5'- cAGGAGCUccucGCCCGGGACCcaacguaGGAGGg -3'
miRNA:   3'- -UCUUUGAac--CGGGCCCUGGcg-----CCUUU- -5'
16232 3' -56.9 NC_004065.1 + 207984 0.68 0.865717
Target:  5'- aGGGAuaccGCggccuGCCCGGGGCCGUGGc-- -3'
miRNA:   3'- -UCUU----UGaac--CGGGCCCUGGCGCCuuu -5'
16232 3' -56.9 NC_004065.1 + 111535 0.67 0.872945
Target:  5'- cGguACUcGGCCCGGGACgGCa---- -3'
miRNA:   3'- uCuuUGAaCCGGGCCCUGgCGccuuu -5'
16232 3' -56.9 NC_004065.1 + 201282 0.67 0.879967
Target:  5'- uGGAGuACuUUGGCCCuccGGcGGCCGgGGGAGg -3'
miRNA:   3'- -UCUU-UG-AACCGGG---CC-CUGGCgCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 119585 0.67 0.884757
Target:  5'- uGAAACggcUGGCCUGGacgugcaggacgccGGCgGCGGAGGa -3'
miRNA:   3'- uCUUUGa--ACCGGGCC--------------CUGgCGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 184903 0.67 0.886778
Target:  5'- cGGGAGCgggcgcccgggUGGCUCGGGAgCGgcCGGGAGa -3'
miRNA:   3'- -UCUUUGa----------ACCGGGCCCUgGC--GCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 195778 0.67 0.892725
Target:  5'- cGAAACgcaGGUcgcgucuCUGGGcGCCGCGGAGAg -3'
miRNA:   3'- uCUUUGaa-CCG-------GGCCC-UGGCGCCUUU- -5'
16232 3' -56.9 NC_004065.1 + 136412 0.67 0.893375
Target:  5'- gGGGAGCUgguccugggGGCCCGGuGAgCCgaggucgguagGCGGGAAg -3'
miRNA:   3'- -UCUUUGAa--------CCGGGCC-CU-GG-----------CGCCUUU- -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.