miRNA display CGI


Results 1 - 20 of 120 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
21395 3' -57.6 NC_004812.1 + 129023 0.66 0.869808
Target:  5'- -cGGGGCcGGCGGCCCCgggggCGgggCCgCGg -3'
miRNA:   3'- ucUCUCGuUCGCUGGGGa----GCa--GGaGC- -5'
21395 3' -57.6 NC_004812.1 + 29971 0.66 0.854855
Target:  5'- cGGGGAGCcuGGCGGCCggcuucugCCUCG-CCggCGg -3'
miRNA:   3'- -UCUCUCGu-UCGCUGG--------GGAGCaGGa-GC- -5'
21395 3' -57.6 NC_004812.1 + 120146 0.66 0.839119
Target:  5'- -uGGGGCGcGgGGCCCCccCGcUCCUCGa -3'
miRNA:   3'- ucUCUCGUuCgCUGGGGa-GC-AGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 139704 0.66 0.854855
Target:  5'- cGGAGAcgGCGAGCuGCCCCggcCGagaaUCCUCc -3'
miRNA:   3'- -UCUCU--CGUUCGcUGGGGa--GC----AGGAGc -5'
21395 3' -57.6 NC_004812.1 + 60357 0.66 0.869808
Target:  5'- cGGccGGCAGGgCGGCCCCcUCGUgguUCUCGu -3'
miRNA:   3'- -UCucUCGUUC-GCUGGGG-AGCA---GGAGC- -5'
21395 3' -57.6 NC_004812.1 + 155480 0.66 0.854855
Target:  5'- cGGGGAGCcuGGCGGCCggcuucugCCUCG-CCggCGg -3'
miRNA:   3'- -UCUCUCGu-UCGCUGG--------GGAGCaGGa-GC- -5'
21395 3' -57.6 NC_004812.1 + 86572 0.66 0.839119
Target:  5'- aGGucGGCGAGCGcCCCCgccUGUCCgCGg -3'
miRNA:   3'- -UCucUCGUUCGCuGGGGa--GCAGGaGC- -5'
21395 3' -57.6 NC_004812.1 + 22289 0.66 0.847082
Target:  5'- -cGGAGCGagGGUGACCCUcuggCGggggggCCUCGg -3'
miRNA:   3'- ucUCUCGU--UCGCUGGGGa---GCa-----GGAGC- -5'
21395 3' -57.6 NC_004812.1 + 123778 0.66 0.869808
Target:  5'- cGAcGGGCgGAGCG-CCCCggcCGgagCCUCGg -3'
miRNA:   3'- uCU-CUCG-UUCGCuGGGGa--GCa--GGAGC- -5'
21395 3' -57.6 NC_004812.1 + 115756 0.66 0.869808
Target:  5'- aGGAGGGuCGGGCGGCa-CUCGcUCUCGc -3'
miRNA:   3'- -UCUCUC-GUUCGCUGggGAGCaGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 57871 0.66 0.852543
Target:  5'- cAGGGcGCGGGCGGgaacgccaucaucuCCUcgcugagguaCUCGUCCUCGa -3'
miRNA:   3'- -UCUCuCGUUCGCU--------------GGG----------GAGCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 8002 0.66 0.854855
Target:  5'- aGGGGGGCGcucccGCGACCCCggggggcgCGggccggCCUCc -3'
miRNA:   3'- -UCUCUCGUu----CGCUGGGGa-------GCa-----GGAGc -5'
21395 3' -57.6 NC_004812.1 + 50293 0.66 0.839119
Target:  5'- aGGAGGGCGAGaCG-CCCgacaacaccuuuCUCGUCCa-- -3'
miRNA:   3'- -UCUCUCGUUC-GCuGGG------------GAGCAGGagc -5'
21395 3' -57.6 NC_004812.1 + 69753 0.66 0.838313
Target:  5'- cGGGGGGCAccAGUGcgcucgcGCCUCUCG-CCUCc -3'
miRNA:   3'- -UCUCUCGU--UCGC-------UGGGGAGCaGGAGc -5'
21395 3' -57.6 NC_004812.1 + 14931 0.66 0.854086
Target:  5'- cGAaGGCGGGCGcgugcaugacgagGCCCaggucgUCGUCCUCGu -3'
miRNA:   3'- uCUcUCGUUCGC-------------UGGGg-----AGCAGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 40852 0.66 0.854855
Target:  5'- cGAGAGCGAGUGcCCgCC-CGacccUCCUCc -3'
miRNA:   3'- uCUCUCGUUCGCuGG-GGaGC----AGGAGc -5'
21395 3' -57.6 NC_004812.1 + 136816 0.66 0.839119
Target:  5'- aGGuGGGcCGAGCGGCCCUcuUCGcCC-CGg -3'
miRNA:   3'- -UCuCUC-GUUCGCUGGGG--AGCaGGaGC- -5'
21395 3' -57.6 NC_004812.1 + 148263 0.66 0.862432
Target:  5'- cGGGAuGCGcgaucgcucuGGCGGCUUCUCGgcgcUCCUCGu -3'
miRNA:   3'- uCUCU-CGU----------UCGCUGGGGAGC----AGGAGC- -5'
21395 3' -57.6 NC_004812.1 + 91092 0.66 0.839119
Target:  5'- gGGGGGGCGccaggGGCGcgccguCCCCUCGcCCcCGu -3'
miRNA:   3'- -UCUCUCGU-----UCGCu-----GGGGAGCaGGaGC- -5'
21395 3' -57.6 NC_004812.1 + 48130 0.66 0.839119
Target:  5'- cGGAgGAGCGGGUGGCC----GUCCUCGa -3'
miRNA:   3'- -UCU-CUCGUUCGCUGGggagCAGGAGC- -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.