miRNA display CGI


Results 1 - 20 of 123 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
31005 5' -54 NC_006560.1 + 58146 0.66 0.967154
Target:  5'- cGGAGGaUGGGCGGgucgggGAAGUA--UCGGGc -3'
miRNA:   3'- -UCUUC-ACCCGCCg-----CUUCAUgcAGUCC- -5'
31005 5' -54 NC_006560.1 + 15028 0.66 0.967154
Target:  5'- cGggGUGcGGCGuCGGAGacucGCGcCGGGg -3'
miRNA:   3'- uCuuCAC-CCGCcGCUUCa---UGCaGUCC- -5'
31005 5' -54 NC_006560.1 + 12026 0.66 0.967154
Target:  5'- cGgcGUGG-CGGCGggGgcacgcCGUCAGc -3'
miRNA:   3'- uCuuCACCcGCCGCuuCau----GCAGUCc -5'
31005 5' -54 NC_006560.1 + 146467 0.66 0.963905
Target:  5'- gAGGAGcGGGgGGCGGAGcgGCGgccgcgagCGGa -3'
miRNA:   3'- -UCUUCaCCCgCCGCUUCa-UGCa-------GUCc -5'
31005 5' -54 NC_006560.1 + 3481 0.66 0.963905
Target:  5'- -----cGGGCGGCGucg-GCGUCGGc -3'
miRNA:   3'- ucuucaCCCGCCGCuucaUGCAGUCc -5'
31005 5' -54 NC_006560.1 + 32896 0.66 0.963905
Target:  5'- cGggG-GGGCGcgcccGCGggGUAgcCGcCGGGg -3'
miRNA:   3'- uCuuCaCCCGC-----CGCuuCAU--GCaGUCC- -5'
31005 5' -54 NC_006560.1 + 33156 0.66 0.963905
Target:  5'- gGGAAG-GGGCccGCGggGaagGCGgccgCGGGg -3'
miRNA:   3'- -UCUUCaCCCGc-CGCuuCa--UGCa---GUCC- -5'
31005 5' -54 NC_006560.1 + 14872 0.66 0.963568
Target:  5'- cGggG-GGGCGGggaGAGGUcguucccgggcccGgGUCGGGg -3'
miRNA:   3'- uCuuCaCCCGCCg--CUUCA-------------UgCAGUCC- -5'
31005 5' -54 NC_006560.1 + 3890 0.66 0.960438
Target:  5'- cGgcGUcGGCGGCGucGgcgGCGUCGGc -3'
miRNA:   3'- uCuuCAcCCGCCGCuuCa--UGCAGUCc -5'
31005 5' -54 NC_006560.1 + 8785 0.66 0.960438
Target:  5'- cGggGUGaGCGGaacgaCGGAGgggGCGUCGGa -3'
miRNA:   3'- uCuuCACcCGCC-----GCUUCa--UGCAGUCc -5'
31005 5' -54 NC_006560.1 + 34442 0.66 0.960438
Target:  5'- gAGAGGcgGcGGCGGCGGuGGU-CG-CGGGg -3'
miRNA:   3'- -UCUUCa-C-CCGCCGCU-UCAuGCaGUCC- -5'
31005 5' -54 NC_006560.1 + 47857 0.66 0.960438
Target:  5'- cGggGUccGGCGGCGGGccggGgGUCGGGg -3'
miRNA:   3'- uCuuCAc-CCGCCGCUUca--UgCAGUCC- -5'
31005 5' -54 NC_006560.1 + 133164 0.66 0.956747
Target:  5'- cGAAGUaguccucgGaGGCGGUGAGG-GCGUCcgcGGGg -3'
miRNA:   3'- uCUUCA--------C-CCGCCGCUUCaUGCAG---UCC- -5'
31005 5' -54 NC_006560.1 + 81432 0.66 0.956747
Target:  5'- cGGGccgGGGCGGCcccGGUcgcgGCGUCGGGc -3'
miRNA:   3'- -UCUucaCCCGCCGcu-UCA----UGCAGUCC- -5'
31005 5' -54 NC_006560.1 + 21932 0.66 0.956747
Target:  5'- -----cGGGCGGCGAAGga-GagAGGa -3'
miRNA:   3'- ucuucaCCCGCCGCUUCaugCagUCC- -5'
31005 5' -54 NC_006560.1 + 8547 0.66 0.956365
Target:  5'- uGGggGUGGggcgacuguggcuGCGGCGAucc-CGUCAGcGg -3'
miRNA:   3'- -UCuuCACC-------------CGCCGCUucauGCAGUC-C- -5'
31005 5' -54 NC_006560.1 + 133694 0.66 0.955595
Target:  5'- cGGGA-UGGGCGcgcgcagcacguccGCGAAGUACGgggcacgaaCAGGg -3'
miRNA:   3'- -UCUUcACCCGC--------------CGCUUCAUGCa--------GUCC- -5'
31005 5' -54 NC_006560.1 + 25798 0.66 0.952828
Target:  5'- gAGGAGgGGGCGcGCGAGGgggaaGagGGGa -3'
miRNA:   3'- -UCUUCaCCCGC-CGCUUCaug--CagUCC- -5'
31005 5' -54 NC_006560.1 + 141714 0.66 0.952828
Target:  5'- cGggG-GGGgGGCGAAGgugg-CGGGa -3'
miRNA:   3'- uCuuCaCCCgCCGCUUCaugcaGUCC- -5'
31005 5' -54 NC_006560.1 + 99829 0.66 0.952828
Target:  5'- uGGuuguAGUGGGCGGCcgggauccaGAGGUAgcuccCGUCgccGGGg -3'
miRNA:   3'- -UCu---UCACCCGCCG---------CUUCAU-----GCAG---UCC- -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.