miRNA display CGI


Results 1 - 20 of 56 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
2891 3' -47.3 NC_001493.1 + 54863 0.66 0.999754
Target:  5'- -------cCCGGGGA-GCGAGuGGUGCg -3'
miRNA:   3'- gcuuuauaGGCCCUUaCGCUU-UCGCG- -5'
2891 3' -47.3 NC_001493.1 + 66497 0.66 0.999754
Target:  5'- aCGAGAcAUCaCGGGGAU----AGGCGCg -3'
miRNA:   3'- -GCUUUaUAG-GCCCUUAcgcuUUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 61862 0.66 0.999754
Target:  5'- ---cGUAUCCacgGGGAagGCGAuGGCGa -3'
miRNA:   3'- gcuuUAUAGG---CCCUuaCGCUuUCGCg -5'
2891 3' -47.3 NC_001493.1 + 28467 0.66 0.999742
Target:  5'- aCGAGAaaaacaaaucCCGGGAc-GCGgAGAGCGCc -3'
miRNA:   3'- -GCUUUaua-------GGCCCUuaCGC-UUUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 94691 0.66 0.999687
Target:  5'- uCGAAGUAUaucCCGGGGAccCGu--GCGCc -3'
miRNA:   3'- -GCUUUAUA---GGCCCUUacGCuuuCGCG- -5'
2891 3' -47.3 NC_001493.1 + 99557 0.66 0.999687
Target:  5'- aGAGA-GUCCGGGcAGUGacccaaacauCGAucguGAGCGCc -3'
miRNA:   3'- gCUUUaUAGGCCC-UUAC----------GCU----UUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 119386 0.66 0.999687
Target:  5'- -------cCCGGGcAUGaCGAGAGCGg -3'
miRNA:   3'- gcuuuauaGGCCCuUAC-GCUUUCGCg -5'
2891 3' -47.3 NC_001493.1 + 3832 0.66 0.999687
Target:  5'- -------cCCGGGcAUGaCGAGAGCGg -3'
miRNA:   3'- gcuuuauaGGCCCuUAC-GCUUUCGCg -5'
2891 3' -47.3 NC_001493.1 + 113434 0.66 0.999656
Target:  5'- gGggGUugCCGGGuccguggcuggGCGAccGCGCg -3'
miRNA:   3'- gCuuUAuaGGCCCuua--------CGCUuuCGCG- -5'
2891 3' -47.3 NC_001493.1 + 49835 0.66 0.999639
Target:  5'- -----cGUCCGGGAAUGUggucuugaGAugguccacgagagacAGGCGCu -3'
miRNA:   3'- gcuuuaUAGGCCCUUACG--------CU---------------UUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 131693 0.66 0.999604
Target:  5'- uGAGGUAccuggucauUCCGGGGuu-UGAuGGCGCg -3'
miRNA:   3'- gCUUUAU---------AGGCCCUuacGCUuUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 16138 0.66 0.999604
Target:  5'- uGAGGUAccuggucauUCCGGGGuu-UGAuGGCGCg -3'
miRNA:   3'- gCUUUAU---------AGGCCCUuacGCUuUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 89801 0.66 0.999604
Target:  5'- uGGAAUAggCCGGcGGguaguGUGUGGcGAGCGCc -3'
miRNA:   3'- gCUUUAUa-GGCC-CU-----UACGCU-UUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 4729 0.66 0.999604
Target:  5'- ---cGUGUUCGGGuuUGggcacaccCGggGGCGCg -3'
miRNA:   3'- gcuuUAUAGGCCCuuAC--------GCuuUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 65630 0.67 0.999502
Target:  5'- uCGAAAUcGUCUGGGuagacUGCGA--GCGUu -3'
miRNA:   3'- -GCUUUA-UAGGCCCuu---ACGCUuuCGCG- -5'
2891 3' -47.3 NC_001493.1 + 64068 0.67 0.999378
Target:  5'- -------cCCGGGAuugucgGuCGggGGCGCg -3'
miRNA:   3'- gcuuuauaGGCCCUua----C-GCuuUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 28702 0.67 0.999229
Target:  5'- gCGGAAc--UCGGGcGUGUGA-AGCGCa -3'
miRNA:   3'- -GCUUUauaGGCCCuUACGCUuUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 20467 0.67 0.999229
Target:  5'- uCGucGUGUUCGGGAGgguugcagGCGggGGUuccggGCa -3'
miRNA:   3'- -GCuuUAUAGGCCCUUa-------CGCuuUCG-----CG- -5'
2891 3' -47.3 NC_001493.1 + 19585 0.67 0.999049
Target:  5'- gGGGAUccCCGGuGccGCGGGAGCGUa -3'
miRNA:   3'- gCUUUAuaGGCCcUuaCGCUUUCGCG- -5'
2891 3' -47.3 NC_001493.1 + 20898 0.67 0.999049
Target:  5'- gGGGAUccCCGGuGccGCGGGAGCGUa -3'
miRNA:   3'- gCUUUAuaGGCCcUuaCGCUUUCGCG- -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.