miRNA display CGI


Results 1 - 20 of 48 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
11590 3' -61.5 NC_003085.1 + 454 0.69 0.226032
Target:  5'- gGCGcGGAGGGCCAgcCGGCGcuguugcagguGCCcacgGGCGAg -3'
miRNA:   3'- -CGCuUCUCCCGGU--GCCGC-----------CGG----UCGUU- -5'
11590 3' -61.5 NC_003085.1 + 2348 0.67 0.298053
Target:  5'- uGCGAcauccgGGAGGcgcagugcgagGCCGCGGCGcGCgAGCu- -3'
miRNA:   3'- -CGCU------UCUCC-----------CGGUGCCGC-CGgUCGuu -5'
11590 3' -61.5 NC_003085.1 + 6144 0.66 0.360834
Target:  5'- -aGAGGAGGGCgaCAUGGCGGgaCUGGUGGa -3'
miRNA:   3'- cgCUUCUCCCG--GUGCCGCC--GGUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 6468 0.66 0.312917
Target:  5'- gGCGAAGAuggacucGGCCGaugaaGUGGCCAGCGu -3'
miRNA:   3'- -CGCUUCUc------CCGGUgc---CGCCGGUCGUu -5'
11590 3' -61.5 NC_003085.1 + 6936 0.72 0.140193
Target:  5'- gGCGAAGcgGGaGGCCACgcaGGUGGCguGCGAa -3'
miRNA:   3'- -CGCUUC--UC-CCGGUG---CCGCCGguCGUU- -5'
11590 3' -61.5 NC_003085.1 + 7099 0.67 0.298053
Target:  5'- cCGccGAGGGCaugCGCGaGCGGgCGGCGAa -3'
miRNA:   3'- cGCuuCUCCCG---GUGC-CGCCgGUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 7911 0.67 0.283742
Target:  5'- cGCGAcuGccGCCGCGGCGG-CAGCAGa -3'
miRNA:   3'- -CGCUucUccCGGUGCCGCCgGUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 8749 0.68 0.263304
Target:  5'- gGCG-AGAGGuCCAcCGGCGcGuCCAGCAc -3'
miRNA:   3'- -CGCuUCUCCcGGU-GCCGC-C-GGUCGUu -5'
11590 3' -61.5 NC_003085.1 + 8842 0.66 0.344309
Target:  5'- aCGAGGAcGGCaGCGGCcGUCAGCAc -3'
miRNA:   3'- cGCUUCUcCCGgUGCCGcCGGUCGUu -5'
11590 3' -61.5 NC_003085.1 + 9017 0.66 0.312917
Target:  5'- gGCGcuacguAGGGCUggACGGCGGCaGGCAGc -3'
miRNA:   3'- -CGCuuc---UCCCGG--UGCCGCCGgUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 9160 0.7 0.169319
Target:  5'- gGCGAgguAGAGGGCgACGcuGCccaGGCCGGCGc -3'
miRNA:   3'- -CGCU---UCUCCCGgUGC--CG---CCGGUCGUu -5'
11590 3' -61.5 NC_003085.1 + 9232 0.69 0.21464
Target:  5'- gGCGAAGAGcccGCCACcaauGGCgagGGCCAGCc- -3'
miRNA:   3'- -CGCUUCUCc--CGGUG----CCG---CCGGUCGuu -5'
11590 3' -61.5 NC_003085.1 + 9312 0.69 0.216878
Target:  5'- aGgGGuuGGAGGGUugagcgacucagacgCGCGGCGGCCAGgAc -3'
miRNA:   3'- -CgCU--UCUCCCG---------------GUGCCGCCGGUCgUu -5'
11590 3' -61.5 NC_003085.1 + 11311 0.7 0.190299
Target:  5'- gGCGggGAGcGCCACcaccaacgccagcagGGCGGCgAGCc- -3'
miRNA:   3'- -CGCuuCUCcCGGUG---------------CCGCCGgUCGuu -5'
11590 3' -61.5 NC_003085.1 + 12693 0.7 0.188301
Target:  5'- cCGAGGAGuacGCCgACGGCgaGGCCGGCGg -3'
miRNA:   3'- cGCUUCUCc--CGG-UGCCG--CCGGUCGUu -5'
11590 3' -61.5 NC_003085.1 + 18521 0.66 0.315194
Target:  5'- cGCGAAGAggugugcGGGCCgAUugcccagaagcacgaGGUGGCgGGCAAg -3'
miRNA:   3'- -CGCUUCU-------CCCGG-UG---------------CCGCCGgUCGUU- -5'
11590 3' -61.5 NC_003085.1 + 19309 0.68 0.237325
Target:  5'- gGCGggGGugacguccugcguGGGCUGCuGgGGCCGGCGg -3'
miRNA:   3'- -CGCuuCU-------------CCCGGUGcCgCCGGUCGUu -5'
11590 3' -61.5 NC_003085.1 + 19711 0.71 0.164848
Target:  5'- aCGAGGuGGGGCgCgACGGCGGCCAcguccuggGCGAc -3'
miRNA:   3'- cGCUUC-UCCCG-G-UGCCGCCGGU--------CGUU- -5'
11590 3' -61.5 NC_003085.1 + 20336 0.66 0.352503
Target:  5'- aUGAAcucuGGGCCACGGCGcCuCAGCGc -3'
miRNA:   3'- cGCUUcu--CCCGGUGCCGCcG-GUCGUu -5'
11590 3' -61.5 NC_003085.1 + 22584 0.7 0.173897
Target:  5'- gGCGu-GuGGGCCGCGGCGGagaaaaAGCGGg -3'
miRNA:   3'- -CGCuuCuCCCGGUGCCGCCgg----UCGUU- -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.