miRNA display CGI


Results 1 - 20 of 27 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
9616 3' -53.9 NC_002577.1 + 162317 0.66 0.965227
Target:  5'- -uGACGCAuccgcacgGCaGACCGCGGCC-CGu -3'
miRNA:   3'- uuCUGUGUuca-----UG-CUGGCGUCGGaGC- -5'
9616 3' -53.9 NC_002577.1 + 133614 0.66 0.965227
Target:  5'- --aACGCGGcUG-GGCCGCAGCCUCc -3'
miRNA:   3'- uucUGUGUUcAUgCUGGCGUCGGAGc -5'
9616 3' -53.9 NC_002577.1 + 135010 0.66 0.965227
Target:  5'- -uGACGCAuccgcacgGCaGACCGCGGCC-CGu -3'
miRNA:   3'- uuCUGUGUuca-----UG-CUGGCGUCGGaGC- -5'
9616 3' -53.9 NC_002577.1 + 156413 0.66 0.958165
Target:  5'- cAGGAcCGCGGGgcCG-CCGCGGCCguuUCGu -3'
miRNA:   3'- -UUCU-GUGUUCauGCuGGCGUCGG---AGC- -5'
9616 3' -53.9 NC_002577.1 + 140924 0.66 0.958165
Target:  5'- cAGGAcCGCGGGgcCG-CCGCGGCCguuUCGu -3'
miRNA:   3'- -UUCU-GUGUUCauGCuGGCGUCGG---AGC- -5'
9616 3' -53.9 NC_002577.1 + 104596 0.66 0.95429
Target:  5'- gAAGGCACGAGUcCGA-CGUuuaucgagAGCCUUGg -3'
miRNA:   3'- -UUCUGUGUUCAuGCUgGCG--------UCGGAGC- -5'
9616 3' -53.9 NC_002577.1 + 2838 0.66 0.945828
Target:  5'- cAGACACcgGAGUccacaGCGACCGCGauuuCCUCu -3'
miRNA:   3'- uUCUGUG--UUCA-----UGCUGGCGUc---GGAGc -5'
9616 3' -53.9 NC_002577.1 + 44056 0.66 0.945828
Target:  5'- cGGGAUAgAAGUACGuGCCGgCAGCgaUCGu -3'
miRNA:   3'- -UUCUGUgUUCAUGC-UGGC-GUCGg-AGC- -5'
9616 3' -53.9 NC_002577.1 + 130776 0.66 0.945828
Target:  5'- cAGACACcgGAGUccacaGCGACCGCGauuuCCUCu -3'
miRNA:   3'- uUCUGUG--UUCA-----UGCUGGCGUc---GGAGc -5'
9616 3' -53.9 NC_002577.1 + 35360 0.66 0.94538
Target:  5'- gAGGACACucGUcguuuucGCGGCCGC-GCCcCGg -3'
miRNA:   3'- -UUCUGUGuuCA-------UGCUGGCGuCGGaGC- -5'
9616 3' -53.9 NC_002577.1 + 16030 0.67 0.941235
Target:  5'- uGGGGCACAgauaggacgGGUGCGACCucaCAGUCUUc -3'
miRNA:   3'- -UUCUGUGU---------UCAUGCUGGc--GUCGGAGc -5'
9616 3' -53.9 NC_002577.1 + 57855 0.67 0.941235
Target:  5'- cGGGCGCu--UGCGcCCGCgccGGCCUCGu -3'
miRNA:   3'- uUCUGUGuucAUGCuGGCG---UCGGAGC- -5'
9616 3' -53.9 NC_002577.1 + 153197 0.67 0.925435
Target:  5'- gAAGACGCAAGcuccgcaaaagcUuaccguaguuacgACGGCCGCGGCCa-- -3'
miRNA:   3'- -UUCUGUGUUC------------A-------------UGCUGGCGUCGGagc -5'
9616 3' -53.9 NC_002577.1 + 41758 0.68 0.913981
Target:  5'- cGGuCACGcuucuGUugGGCCGCgacacguGGCCUCGa -3'
miRNA:   3'- uUCuGUGUu----CAugCUGGCG-------UCGGAGC- -5'
9616 3' -53.9 NC_002577.1 + 158869 0.68 0.895632
Target:  5'- gAGGAC---GGcGCGGCCGCGGCCggCGg -3'
miRNA:   3'- -UUCUGuguUCaUGCUGGCGUCGGa-GC- -5'
9616 3' -53.9 NC_002577.1 + 138468 0.68 0.895632
Target:  5'- gAGGAC---GGcGCGGCCGCGGCCggCGg -3'
miRNA:   3'- -UUCUGuguUCaUGCUGGCGUCGGa-GC- -5'
9616 3' -53.9 NC_002577.1 + 125437 0.69 0.867065
Target:  5'- cGGACACcGGUGCGuCCG-GGCgCUCGg -3'
miRNA:   3'- uUCUGUGuUCAUGCuGGCgUCG-GAGC- -5'
9616 3' -53.9 NC_002577.1 + 8176 0.69 0.867065
Target:  5'- cGGACACcGGUGCGuCCG-GGCgCUCGg -3'
miRNA:   3'- uUCUGUGuUCAUGCuGGCgUCG-GAGC- -5'
9616 3' -53.9 NC_002577.1 + 123800 0.69 0.843327
Target:  5'- cGGGAUccggaaucccguGCAGGUACGcACCGCGGgCUCc -3'
miRNA:   3'- -UUCUG------------UGUUCAUGC-UGGCGUCgGAGc -5'
9616 3' -53.9 NC_002577.1 + 9813 0.69 0.843327
Target:  5'- cGGGAUccggaaucccguGCAGGUACGcACCGCGGgCUCc -3'
miRNA:   3'- -UUCUG------------UGUUCAUGC-UGGCGUCgGAGc -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.