miRNA display CGI


Results 1 - 20 of 65 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
13002 3' -56.9 NC_003387.1 + 51766 1.11 0.000509
Target:  5'- uACACAACUACCCGCCCGACUGGUGGCu -3'
miRNA:   3'- -UGUGUUGAUGGGCGGGCUGACCACCG- -5'
13002 3' -56.9 NC_003387.1 + 25599 0.84 0.043974
Target:  5'- gGCACGGCcucgacccgcagUGCCucgugaauaCGCCCGACUGGUGGCa -3'
miRNA:   3'- -UGUGUUG------------AUGG---------GCGGGCUGACCACCG- -5'
13002 3' -56.9 NC_003387.1 + 7438 0.83 0.052318
Target:  5'- cCACAGaUGCCCGCCCGACggGGUcGGCg -3'
miRNA:   3'- uGUGUUgAUGGGCGGGCUGa-CCA-CCG- -5'
13002 3' -56.9 NC_003387.1 + 10669 0.76 0.148819
Target:  5'- gACGCGGCUGCgaccacggCCGCCuCGGC-GGUGGCc -3'
miRNA:   3'- -UGUGUUGAUG--------GGCGG-GCUGaCCACCG- -5'
13002 3' -56.9 NC_003387.1 + 46227 0.76 0.161495
Target:  5'- gACGCAACUGCCUucgcgGCCCGGUUGGUcGCg -3'
miRNA:   3'- -UGUGUUGAUGGG-----CGGGCUGACCAcCG- -5'
13002 3' -56.9 NC_003387.1 + 3559 0.75 0.189793
Target:  5'- uGCGCGACcGCCUGCgCG-CUGGUGuGCa -3'
miRNA:   3'- -UGUGUUGaUGGGCGgGCuGACCAC-CG- -5'
13002 3' -56.9 NC_003387.1 + 27161 0.74 0.222358
Target:  5'- aGCGCGucgcgaagcuGCUGCCC-CUCGGCgugUGGUGGCg -3'
miRNA:   3'- -UGUGU----------UGAUGGGcGGGCUG---ACCACCG- -5'
13002 3' -56.9 NC_003387.1 + 48045 0.74 0.22469
Target:  5'- gGCACGgcaagcaguucacccGCUACCgCGCCCcgaagcgccucGACgGGUGGCg -3'
miRNA:   3'- -UGUGU---------------UGAUGG-GCGGG-----------CUGaCCACCG- -5'
13002 3' -56.9 NC_003387.1 + 9949 0.73 0.240358
Target:  5'- cACAcCAGCcACuuGCCCGACUcGG-GGCa -3'
miRNA:   3'- -UGU-GUUGaUGggCGGGCUGA-CCaCCG- -5'
13002 3' -56.9 NC_003387.1 + 15389 0.73 0.252376
Target:  5'- uCACGAUcgacccgUACCCGCaCCGGCguaacuggcGGUGGCg -3'
miRNA:   3'- uGUGUUG-------AUGGGCG-GGCUGa--------CCACCG- -5'
13002 3' -56.9 NC_003387.1 + 7998 0.73 0.252376
Target:  5'- cCGCAACagugacucucgUGCCCucugucgGCCCG-CUGGUGGCc -3'
miRNA:   3'- uGUGUUG-----------AUGGG-------CGGGCuGACCACCG- -5'
13002 3' -56.9 NC_003387.1 + 13969 0.73 0.259558
Target:  5'- cACGCGAUUucuggcucgACCCGCCCaaguauccgaauGACUGGcagGGCa -3'
miRNA:   3'- -UGUGUUGA---------UGGGCGGG------------CUGACCa--CCG- -5'
13002 3' -56.9 NC_003387.1 + 29994 0.73 0.266231
Target:  5'- -aGCGACcGCgaguaCGCCCGACUGGUcGGUa -3'
miRNA:   3'- ugUGUUGaUGg----GCGGGCUGACCA-CCG- -5'
13002 3' -56.9 NC_003387.1 + 31236 0.71 0.332585
Target:  5'- gACACGAaccaGCCCgGCCCGACcGGcgcgGGCu -3'
miRNA:   3'- -UGUGUUga--UGGG-CGGGCUGaCCa---CCG- -5'
13002 3' -56.9 NC_003387.1 + 18292 0.71 0.332585
Target:  5'- gAC-CAGCgccgACCCgGCCgCGGC-GGUGGCg -3'
miRNA:   3'- -UGuGUUGa---UGGG-CGG-GCUGaCCACCG- -5'
13002 3' -56.9 NC_003387.1 + 33203 0.71 0.348887
Target:  5'- cGCGCAGCgcaagcgcgagGCCCGCUCGGCga-UGGCc -3'
miRNA:   3'- -UGUGUUGa----------UGGGCGGGCUGaccACCG- -5'
13002 3' -56.9 NC_003387.1 + 31904 0.71 0.348887
Target:  5'- cGCGCGACguauccCCUGCuCCGAgcGGUGGCu -3'
miRNA:   3'- -UGUGUUGau----GGGCG-GGCUgaCCACCG- -5'
13002 3' -56.9 NC_003387.1 + 17563 0.7 0.37439
Target:  5'- cGCGCGuCaGCCCGCCCucGCUGGUGucguGCg -3'
miRNA:   3'- -UGUGUuGaUGGGCGGGc-UGACCAC----CG- -5'
13002 3' -56.9 NC_003387.1 + 24010 0.7 0.39208
Target:  5'- cCACcACUugaggGCCUGCCCuuugcgccACUGGUGGCc -3'
miRNA:   3'- uGUGuUGA-----UGGGCGGGc-------UGACCACCG- -5'
13002 3' -56.9 NC_003387.1 + 25787 0.7 0.401126
Target:  5'- gACAUucucgGCCUGCUCGGCggccucGGUGGCg -3'
miRNA:   3'- -UGUGuuga-UGGGCGGGCUGa-----CCACCG- -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.