miRNA display CGI


Results 1 - 20 of 52 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
23462 3' -57.1 NC_005259.1 + 68128 0.67 0.614318
Target:  5'- gAGCaGCGGcGAGCucGGCaGGAUGCgCGUa -3'
miRNA:   3'- -UCG-CGCCaCUCGcuCCG-CUUAUG-GCG- -5'
23462 3' -57.1 NC_005259.1 + 67842 0.74 0.244582
Target:  5'- cAGCcCGGUGAGCGGGuCGAccaaucgGUGCCGUa -3'
miRNA:   3'- -UCGcGCCACUCGCUCcGCU-------UAUGGCG- -5'
23462 3' -57.1 NC_005259.1 + 66921 0.69 0.492493
Target:  5'- cAGCGCgcggugcucgaccggGGUGAGCGGgacaccGGCGAGcuguuucUugCGCg -3'
miRNA:   3'- -UCGCG---------------CCACUCGCU------CCGCUU-------AugGCG- -5'
23462 3' -57.1 NC_005259.1 + 66257 0.67 0.624997
Target:  5'- cAGCGCGGcccgcgccGGGCGGcGGCucAcGCCGCc -3'
miRNA:   3'- -UCGCGCCa-------CUCGCU-CCGcuUaUGGCG- -5'
23462 3' -57.1 NC_005259.1 + 64909 0.69 0.489498
Target:  5'- gAGCGaCGGcGAGCguGAGGaugaCGAGUGCCaGCg -3'
miRNA:   3'- -UCGC-GCCaCUCG--CUCC----GCUUAUGG-CG- -5'
23462 3' -57.1 NC_005259.1 + 62847 0.68 0.550836
Target:  5'- cGCGCGGuUGA-CGAGcagccgcucggcGCGAGguagGCCGCu -3'
miRNA:   3'- uCGCGCC-ACUcGCUC------------CGCUUa---UGGCG- -5'
23462 3' -57.1 NC_005259.1 + 62694 0.67 0.635682
Target:  5'- gAGUGCGGUGucccauccGGCGAucaGGCGGGggaucUCGCu -3'
miRNA:   3'- -UCGCGCCAC--------UCGCU---CCGCUUau---GGCG- -5'
23462 3' -57.1 NC_005259.1 + 61943 0.67 0.624997
Target:  5'- cGCGCGG-GuGcCGGGGCc---ACCGCa -3'
miRNA:   3'- uCGCGCCaCuC-GCUCCGcuuaUGGCG- -5'
23462 3' -57.1 NC_005259.1 + 58938 0.69 0.489498
Target:  5'- gGGCGCGGUGgcAGCGucGGCcuugGCCaGCa -3'
miRNA:   3'- -UCGCGCCAC--UCGCu-CCGcuuaUGG-CG- -5'
23462 3' -57.1 NC_005259.1 + 57029 0.66 0.667681
Target:  5'- cGGCGCGGUGGGgucgcacucguCGuAGGCccacACCGUg -3'
miRNA:   3'- -UCGCGCCACUC-----------GC-UCCGcuuaUGGCG- -5'
23462 3' -57.1 NC_005259.1 + 56930 0.68 0.561307
Target:  5'- cGCGuCGGUGAGCaugcgguuGGCGA--ACuCGCg -3'
miRNA:   3'- uCGC-GCCACUCGcu------CCGCUuaUG-GCG- -5'
23462 3' -57.1 NC_005259.1 + 52637 0.67 0.603654
Target:  5'- uGCGuCGGcugugGGGCGAGGUGAGcgACgaGCa -3'
miRNA:   3'- uCGC-GCCa----CUCGCUCCGCUUa-UGg-CG- -5'
23462 3' -57.1 NC_005259.1 + 50159 0.74 0.25143
Target:  5'- cGGCGC-GUGAGCGAgcGGUGgAAUGcCCGCa -3'
miRNA:   3'- -UCGCGcCACUCGCU--CCGC-UUAU-GGCG- -5'
23462 3' -57.1 NC_005259.1 + 47057 0.87 0.03514
Target:  5'- gAGCGUguuGGUGAGCGAGGCGAGcGCCGa -3'
miRNA:   3'- -UCGCG---CCACUCGCUCCGCUUaUGGCg -5'
23462 3' -57.1 NC_005259.1 + 45304 0.69 0.489498
Target:  5'- cGCGcCGGUGAcGcCGAGGCc---GCCGCc -3'
miRNA:   3'- uCGC-GCCACU-C-GCUCCGcuuaUGGCG- -5'
23462 3' -57.1 NC_005259.1 + 45193 0.76 0.189732
Target:  5'- cAGCGCGGUGAuGaCG-GGCGAGU-UCGCg -3'
miRNA:   3'- -UCGCGCCACU-C-GCuCCGCUUAuGGCG- -5'
23462 3' -57.1 NC_005259.1 + 44136 0.74 0.25143
Target:  5'- uGUGCGuUGAGCGAGGUGAacGUGCgGUc -3'
miRNA:   3'- uCGCGCcACUCGCUCCGCU--UAUGgCG- -5'
23462 3' -57.1 NC_005259.1 + 43948 0.71 0.36929
Target:  5'- cAGCGuCGGcgaUGGGCGGGGCc---GCCGCc -3'
miRNA:   3'- -UCGC-GCC---ACUCGCUCCGcuuaUGGCG- -5'
23462 3' -57.1 NC_005259.1 + 43797 0.67 0.624997
Target:  5'- cAGCGCGGgcaccGAGUccuugccGGGCG--UACCGCc -3'
miRNA:   3'- -UCGCGCCa----CUCGc------UCCGCuuAUGGCG- -5'
23462 3' -57.1 NC_005259.1 + 43712 0.67 0.646364
Target:  5'- cGCGCGaccgcaucGAGuCGAuGGCGGccAUGCCGCc -3'
miRNA:   3'- uCGCGCca------CUC-GCU-CCGCU--UAUGGCG- -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.