miRNA display CGI


Results 1 - 20 of 80 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
18764 3' -66 NC_004683.1 + 33245 0.67 0.239117
Target:  5'- gGCCCGUUucccggcuaGCCAGUCGucGCaCGCUUCGcGg -3'
miRNA:   3'- gCGGGCGG---------CGGUCAGC--CG-GCGGAGC-C- -5'
18764 3' -66 NC_004683.1 + 25108 0.69 0.17397
Target:  5'- gGCCaacccggcggCGuuGCCGGUCcuGGCCGCCgucacCGGu -3'
miRNA:   3'- gCGG----------GCggCGGUCAG--CCGGCGGa----GCC- -5'
18764 3' -66 NC_004683.1 + 26961 0.68 0.182397
Target:  5'- gGUCCGCgcguacgcgugagCGCCGGgcaggcCGGCCaCCUCGGc -3'
miRNA:   3'- gCGGGCG-------------GCGGUCa-----GCCGGcGGAGCC- -5'
18764 3' -66 NC_004683.1 + 6869 0.68 0.18285
Target:  5'- aGCCCuacgGCCGCUGGaCGGCgCGCgaCGGc -3'
miRNA:   3'- gCGGG----CGGCGGUCaGCCG-GCGgaGCC- -5'
18764 3' -66 NC_004683.1 + 10043 0.68 0.19692
Target:  5'- aCG-CCGCCgaGCCGuUCGGCCGCggCGGc -3'
miRNA:   3'- -GCgGGCGG--CGGUcAGCCGGCGgaGCC- -5'
18764 3' -66 NC_004683.1 + 19230 0.68 0.206818
Target:  5'- uGgCCGCCGCCGGgucgaacgCGGUgCGCgUCGa -3'
miRNA:   3'- gCgGGCGGCGGUCa-------GCCG-GCGgAGCc -5'
18764 3' -66 NC_004683.1 + 257 0.67 0.217143
Target:  5'- uGCCCGCgGCgGGgcuGGUCGCgaCGGu -3'
miRNA:   3'- gCGGGCGgCGgUCag-CCGGCGgaGCC- -5'
18764 3' -66 NC_004683.1 + 40945 0.67 0.222469
Target:  5'- cCGCgCCGCCguuGCCcGUCGGCCacGCCgaccUGGc -3'
miRNA:   3'- -GCG-GGCGG---CGGuCAGCCGG--CGGa---GCC- -5'
18764 3' -66 NC_004683.1 + 21940 0.67 0.227906
Target:  5'- cCGCCCGgCGgUGGcgggCGGCCGCCgaguucacCGGc -3'
miRNA:   3'- -GCGGGCgGCgGUCa---GCCGGCGGa-------GCC- -5'
18764 3' -66 NC_004683.1 + 26203 0.69 0.161371
Target:  5'- gCGCUCGcCCGCCAgGUCGagaacGCCGCCgaacgCGa -3'
miRNA:   3'- -GCGGGC-GGCGGU-CAGC-----CGGCGGa----GCc -5'
18764 3' -66 NC_004683.1 + 53585 0.7 0.149601
Target:  5'- aCGCCgGCCGCaccGcCGGCCGCgUCu- -3'
miRNA:   3'- -GCGGgCGGCGgu-CaGCCGGCGgAGcc -5'
18764 3' -66 NC_004683.1 + 26429 0.7 0.138616
Target:  5'- cCGCCggUGCCGCCgAGUUGGCCGCa---- -3'
miRNA:   3'- -GCGG--GCGGCGG-UCAGCCGGCGgagcc -5'
18764 3' -66 NC_004683.1 + 32632 0.73 0.091621
Target:  5'- uCGCCCaGCCGCaguuGGUCGGCaGCCU-GGa -3'
miRNA:   3'- -GCGGG-CGGCGg---UCAGCCGgCGGAgCC- -5'
18764 3' -66 NC_004683.1 + 25891 0.72 0.099098
Target:  5'- aGUUCGCCgGgCAGacgcUGGCCGCCUCGGu -3'
miRNA:   3'- gCGGGCGG-CgGUCa---GCCGGCGGAGCC- -5'
18764 3' -66 NC_004683.1 + 52666 0.72 0.104399
Target:  5'- aCGCaUCGCCGCCAGUauggaGGaCCGCCcCGa -3'
miRNA:   3'- -GCG-GGCGGCGGUCAg----CC-GGCGGaGCc -5'
18764 3' -66 NC_004683.1 + 1351 0.72 0.107148
Target:  5'- uCGCUCGaucCCGCCgAGuUCGGCCgcgagcGCCUCGGc -3'
miRNA:   3'- -GCGGGC---GGCGG-UC-AGCCGG------CGGAGCC- -5'
18764 3' -66 NC_004683.1 + 24191 0.71 0.109965
Target:  5'- gCGCCUGCCGCUcaAGcUCGGCucauccgaCGCC-CGGg -3'
miRNA:   3'- -GCGGGCGGCGG--UC-AGCCG--------GCGGaGCC- -5'
18764 3' -66 NC_004683.1 + 13618 0.71 0.121942
Target:  5'- aGCUCGCCGgCA-UCGG-CGUCUCGGg -3'
miRNA:   3'- gCGGGCGGCgGUcAGCCgGCGGAGCC- -5'
18764 3' -66 NC_004683.1 + 43825 0.71 0.128376
Target:  5'- gGUgCGCUGCUgaccUCGGCCGCgCUCGGu -3'
miRNA:   3'- gCGgGCGGCGGuc--AGCCGGCG-GAGCC- -5'
18764 3' -66 NC_004683.1 + 51627 0.7 0.131709
Target:  5'- aGCCCGCCcccgaGCCcgcGGUCGcGCUGCCggGGu -3'
miRNA:   3'- gCGGGCGG-----CGG---UCAGC-CGGCGGagCC- -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.