miRNA display CGI


Results 1 - 20 of 30 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
27432 3' -62.9 NC_005869.1 + 18565 0.66 0.26418
Target:  5'- cGCGcG-CGGCGGCGCcgGGcuaccGCCUCCAc -3'
miRNA:   3'- -CGCcCaGCCGCCGCGa-CU-----UGGGGGUc -5'
27432 3' -62.9 NC_005869.1 + 6512 0.66 0.257632
Target:  5'- -aGGcGUCGGUGGgGUUGAaggaggagcgGCCUCCGc -3'
miRNA:   3'- cgCC-CAGCCGCCgCGACU----------UGGGGGUc -5'
27432 3' -62.9 NC_005869.1 + 24101 0.66 0.244934
Target:  5'- cGCGuGGU-GGCcgaccuGGCGCUGcugcGCCCCCu- -3'
miRNA:   3'- -CGC-CCAgCCG------CCGCGACu---UGGGGGuc -5'
27432 3' -62.9 NC_005869.1 + 17392 0.66 0.238783
Target:  5'- uGCGGcugaCGGCGGUGgUGc-CCCCCAc -3'
miRNA:   3'- -CGCCca--GCCGCCGCgACuuGGGGGUc -5'
27432 3' -62.9 NC_005869.1 + 15966 0.66 0.238783
Target:  5'- aCGGGU--GCuGGUGCUGGGCacgcgCCCCAGg -3'
miRNA:   3'- cGCCCAgcCG-CCGCGACUUG-----GGGGUC- -5'
27432 3' -62.9 NC_005869.1 + 17686 0.66 0.23276
Target:  5'- aGCGGGaCGGCcacagccgggacGGUGUcuccUGAcuCCCCCAGc -3'
miRNA:   3'- -CGCCCaGCCG------------CCGCG----ACUu-GGGGGUC- -5'
27432 3' -62.9 NC_005869.1 + 10081 0.66 0.232165
Target:  5'- aGCGGGgaagaGGgGGUGCUgauuguggacGAcgcuccugucgcgACCCCCAGc -3'
miRNA:   3'- -CGCCCag---CCgCCGCGA----------CU-------------UGGGGGUC- -5'
27432 3' -62.9 NC_005869.1 + 20731 0.67 0.226867
Target:  5'- gGCGGcGgccggCGGCGGCGCcUGggUgCUCGu -3'
miRNA:   3'- -CGCC-Ca----GCCGCCGCG-ACuuGgGGGUc -5'
27432 3' -62.9 NC_005869.1 + 12478 0.67 0.226867
Target:  5'- aGCGGGUagggccaguUGGCGGgGUaugGGugCCCCu- -3'
miRNA:   3'- -CGCCCA---------GCCGCCgCGa--CUugGGGGuc -5'
27432 3' -62.9 NC_005869.1 + 12851 0.67 0.226867
Target:  5'- cGCGGccgCGGUGGCGCccaacuacuuuaUGAaugccguccugaACCCCCGc -3'
miRNA:   3'- -CGCCca-GCCGCCGCG------------ACU------------UGGGGGUc -5'
27432 3' -62.9 NC_005869.1 + 6206 0.67 0.2211
Target:  5'- cGCGGGcgauggcuUCGGUGGUGC-GGGCgUCCAu -3'
miRNA:   3'- -CGCCC--------AGCCGCCGCGaCUUGgGGGUc -5'
27432 3' -62.9 NC_005869.1 + 11771 0.67 0.209941
Target:  5'- aGCGGGcgacgCGGaugcaGGCGCUGccCUCCCuGg -3'
miRNA:   3'- -CGCCCa----GCCg----CCGCGACuuGGGGGuC- -5'
27432 3' -62.9 NC_005869.1 + 16730 0.67 0.199271
Target:  5'- aGCGGGUCucgggaGCGGU-CUGGACgCCCAc -3'
miRNA:   3'- -CGCCCAGc-----CGCCGcGACUUGgGGGUc -5'
27432 3' -62.9 NC_005869.1 + 15552 0.67 0.199271
Target:  5'- gGCGGuGgaagCGGUGGCGCgccggaggcgGAGCaCCCGGc -3'
miRNA:   3'- -CGCC-Ca---GCCGCCGCGa---------CUUGgGGGUC- -5'
27432 3' -62.9 NC_005869.1 + 194 0.68 0.179342
Target:  5'- gGCGGaGcCGGCuGGCGg-GAAUUCCCGGg -3'
miRNA:   3'- -CGCC-CaGCCG-CCGCgaCUUGGGGGUC- -5'
27432 3' -62.9 NC_005869.1 + 17849 0.68 0.174644
Target:  5'- cGgGGGUCGGCgaGGgGC-GGGCCCgCCGc -3'
miRNA:   3'- -CgCCCAGCCG--CCgCGaCUUGGG-GGUc -5'
27432 3' -62.9 NC_005869.1 + 18821 0.68 0.165576
Target:  5'- cCGGGgacaGGCGGCGg-GcGCCCCCGu -3'
miRNA:   3'- cGCCCag--CCGCCGCgaCuUGGGGGUc -5'
27432 3' -62.9 NC_005869.1 + 8305 0.69 0.156933
Target:  5'- gGUGGGccCGGCGGCGC-GGGCCagcuCCAc -3'
miRNA:   3'- -CGCCCa-GCCGCCGCGaCUUGGg---GGUc -5'
27432 3' -62.9 NC_005869.1 + 8217 0.69 0.156933
Target:  5'- -aGGGgaGGCGGgGCggcGGGCCCUCGGg -3'
miRNA:   3'- cgCCCagCCGCCgCGa--CUUGGGGGUC- -5'
27432 3' -62.9 NC_005869.1 + 6269 0.69 0.148299
Target:  5'- -aGGGcacuggCGGCGGUGCUGGucgaggaGCUCCCGc -3'
miRNA:   3'- cgCCCa-----GCCGCCGCGACU-------UGGGGGUc -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.