miRNA display CGI


Results 1 - 18 of 18 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
1762 3' -54.9 NC_001347.2 + 5250 0.66 0.971719
Target:  5'- ----cACCACuCCGUUCUUAUGCGa-- -3'
miRNA:   3'- ucuuaUGGUG-GGCGAGAGUACGCcgu -5'
1762 3' -54.9 NC_001347.2 + 67862 0.66 0.965765
Target:  5'- ----cGCCGCCUGCUCgcUCGUGC-GCu -3'
miRNA:   3'- ucuuaUGGUGGGCGAG--AGUACGcCGu -5'
1762 3' -54.9 NC_001347.2 + 26591 0.66 0.965765
Target:  5'- gGGAGcACCGuCUCaGCUC-CGUGUGGCGu -3'
miRNA:   3'- -UCUUaUGGU-GGG-CGAGaGUACGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 79096 0.66 0.958979
Target:  5'- cGGAGUGCCAgaaaggggaaCUGC-CUCGaGCGGCGg -3'
miRNA:   3'- -UCUUAUGGUg---------GGCGaGAGUaCGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 174620 0.67 0.955262
Target:  5'- ----cGCUACCCGUaCUCAU-CGGCGa -3'
miRNA:   3'- ucuuaUGGUGGGCGaGAGUAcGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 75554 0.67 0.955262
Target:  5'- cGAGUaggcguagGCCGCCUGCUCgCAggGCGuGCGu -3'
miRNA:   3'- uCUUA--------UGGUGGGCGAGaGUa-CGC-CGU- -5'
1762 3' -54.9 NC_001347.2 + 38008 0.67 0.947158
Target:  5'- ----aGCCGCCgCGCggcCUCG-GCGGCGg -3'
miRNA:   3'- ucuuaUGGUGG-GCGa--GAGUaCGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 212009 0.67 0.947158
Target:  5'- gAGGAU-CCAUgCGCUgU-GUGCGGCAu -3'
miRNA:   3'- -UCUUAuGGUGgGCGAgAgUACGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 13512 0.67 0.942765
Target:  5'- cGggUGCuCACCCGC-Cgg--GCGGCc -3'
miRNA:   3'- uCuuAUG-GUGGGCGaGaguaCGCCGu -5'
1762 3' -54.9 NC_001347.2 + 80166 0.68 0.928193
Target:  5'- cGGAaGCCACCCGCUUagcagCGUGuuGCGc -3'
miRNA:   3'- uCUUaUGGUGGGCGAGa----GUACgcCGU- -5'
1762 3' -54.9 NC_001347.2 + 140403 0.68 0.917309
Target:  5'- cGggUGCgCACCCGCUUgCccGUGGUg -3'
miRNA:   3'- uCuuAUG-GUGGGCGAGaGuaCGCCGu -5'
1762 3' -54.9 NC_001347.2 + 208231 0.69 0.898601
Target:  5'- gAGAcgGCCGCcgCCGCuaccgcagaggcuUCUCccGCGGCAg -3'
miRNA:   3'- -UCUuaUGGUG--GGCG-------------AGAGuaCGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 89073 0.69 0.886053
Target:  5'- ----gGCCGCCCGUUgCUCcaacagguGUGCGGCc -3'
miRNA:   3'- ucuuaUGGUGGGCGA-GAG--------UACGCCGu -5'
1762 3' -54.9 NC_001347.2 + 66222 0.69 0.871989
Target:  5'- ----cACCACCCGCgccUUCGUG-GGCAa -3'
miRNA:   3'- ucuuaUGGUGGGCGa--GAGUACgCCGU- -5'
1762 3' -54.9 NC_001347.2 + 77053 0.69 0.864638
Target:  5'- cGcGUGCCGCCgGC-CUCGgacgaaGCGGCAg -3'
miRNA:   3'- uCuUAUGGUGGgCGaGAGUa-----CGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 89731 0.7 0.841379
Target:  5'- ----cACCACCCGCcgUCgUCGccUGCGGCGu -3'
miRNA:   3'- ucuuaUGGUGGGCG--AG-AGU--ACGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 107416 0.7 0.841379
Target:  5'- --uGUACCGCCaCGCUC-CGgcGCGGCGg -3'
miRNA:   3'- ucuUAUGGUGG-GCGAGaGUa-CGCCGU- -5'
1762 3' -54.9 NC_001347.2 + 47425 1.09 0.005208
Target:  5'- aAGAAUACCACCCGCUCUCAUGCGGCAg -3'
miRNA:   3'- -UCUUAUGGUGGGCGAGAGUACGCCGU- -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.