miRNA display CGI


Results 1 - 20 of 100 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
12975 3' -65.4 NC_003387.1 + 4926 0.66 0.247327
Target:  5'- uGCCCGGCgCGGCguCgcgcguugucgaacgUGACAGaccaGCCGGu -3'
miRNA:   3'- -CGGGCCGgGCCG--G---------------ACUGUCg---CGGCUu -5'
12975 3' -65.4 NC_003387.1 + 23408 0.66 0.227422
Target:  5'- aGCgCGGCCUGGCgCUcgugcccGCGGuCGCCGGGg -3'
miRNA:   3'- -CGgGCCGGGCCG-GAc------UGUC-GCGGCUU- -5'
12975 3' -65.4 NC_003387.1 + 22494 0.66 0.227422
Target:  5'- aCCgGGCgaCGGCCUcGGCGGCGCgcuCGAc -3'
miRNA:   3'- cGGgCCGg-GCCGGA-CUGUCGCG---GCUu -5'
12975 3' -65.4 NC_003387.1 + 15419 0.66 0.227422
Target:  5'- -gUCGGCgCGGUCgacGACcGCGCCGAc -3'
miRNA:   3'- cgGGCCGgGCCGGa--CUGuCGCGGCUu -5'
12975 3' -65.4 NC_003387.1 + 12295 0.66 0.227422
Target:  5'- gGCCgGGCCgGGCCgguucGCcGuCGCCGAc -3'
miRNA:   3'- -CGGgCCGGgCCGGac---UGuC-GCGGCUu -5'
12975 3' -65.4 NC_003387.1 + 35690 0.66 0.221832
Target:  5'- cGCCCGGCgaGGgC-GGCAGcCGCCGc- -3'
miRNA:   3'- -CGGGCCGggCCgGaCUGUC-GCGGCuu -5'
12975 3' -65.4 NC_003387.1 + 6931 0.66 0.221279
Target:  5'- -gUCGGCCaucaucgCGGCCUGcGCAGCGgCGGg -3'
miRNA:   3'- cgGGCCGG-------GCCGGAC-UGUCGCgGCUu -5'
12975 3' -65.4 NC_003387.1 + 49701 0.66 0.216358
Target:  5'- aGCCCGGCaugaaCGuGCCgaaGCAaCGCCGGAa -3'
miRNA:   3'- -CGGGCCGg----GC-CGGac-UGUcGCGGCUU- -5'
12975 3' -65.4 NC_003387.1 + 30056 0.66 0.216358
Target:  5'- cGCCCacgaGCgCGcCCUGACGGCcGCCGGGg -3'
miRNA:   3'- -CGGGc---CGgGCcGGACUGUCG-CGGCUU- -5'
12975 3' -65.4 NC_003387.1 + 24846 0.66 0.227422
Target:  5'- gGCCgGGCuCCuGCUcGACcGCGCCGGu -3'
miRNA:   3'- -CGGgCCG-GGcCGGaCUGuCGCGGCUu -5'
12975 3' -65.4 NC_003387.1 + 31347 0.66 0.227422
Target:  5'- aGCgCGGgucgaacagcaCCGGCCagGGCAGCGUCGGc -3'
miRNA:   3'- -CGgGCCg----------GGCCGGa-CUGUCGCGGCUu -5'
12975 3' -65.4 NC_003387.1 + 35523 0.66 0.233132
Target:  5'- uGCCuCGGCCuCGGCC--ACuuucGCGCCGu- -3'
miRNA:   3'- -CGG-GCCGG-GCCGGacUGu---CGCGGCuu -5'
12975 3' -65.4 NC_003387.1 + 22993 0.66 0.244913
Target:  5'- cGCCCGcGUagcugccgucgUCGGCCUgGGCGcCGCCGAGc -3'
miRNA:   3'- -CGGGC-CG-----------GGCCGGA-CUGUcGCGGCUU- -5'
12975 3' -65.4 NC_003387.1 + 17146 0.66 0.244913
Target:  5'- -aCCaGCUCGGCC--AgGGCGCCGAGg -3'
miRNA:   3'- cgGGcCGGGCCGGacUgUCGCGGCUU- -5'
12975 3' -65.4 NC_003387.1 + 5699 0.66 0.244913
Target:  5'- uGCCCGGCCgGGCCgccaaUGAa---GUCGAGc -3'
miRNA:   3'- -CGGGCCGGgCCGG-----ACUgucgCGGCUU- -5'
12975 3' -65.4 NC_003387.1 + 46235 0.66 0.238962
Target:  5'- uGCCuucgCGGCCCGG-UUGGucGCGCCGAc -3'
miRNA:   3'- -CGG----GCCGGGCCgGACUguCGCGGCUu -5'
12975 3' -65.4 NC_003387.1 + 39762 0.66 0.238962
Target:  5'- cGCCCGGUaCGaGCCgc-CAGaCGCCGAc -3'
miRNA:   3'- -CGGGCCGgGC-CGGacuGUC-GCGGCUu -5'
12975 3' -65.4 NC_003387.1 + 34424 0.66 0.238962
Target:  5'- cGCCaccGCCgCGGCCgGGuCGGCGCUGGu -3'
miRNA:   3'- -CGGgc-CGG-GCCGGaCU-GUCGCGGCUu -5'
12975 3' -65.4 NC_003387.1 + 15594 0.66 0.238962
Target:  5'- uGCCCaaccaucacGGCCCGGCC-GACgucgAGCacGUCGAGg -3'
miRNA:   3'- -CGGG---------CCGGGCCGGaCUG----UCG--CGGCUU- -5'
12975 3' -65.4 NC_003387.1 + 50261 0.66 0.238962
Target:  5'- cGCCgGGCggugcaccUCGGCCUGGCGcGCGUCc-- -3'
miRNA:   3'- -CGGgCCG--------GGCCGGACUGU-CGCGGcuu -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.