miRNA display CGI


Results 1 - 20 of 244 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
28047 3' -64.2 NC_005887.1 + 9139 0.66 0.286884
Target:  5'- aCCGAGUGCcaguGCGGCGcguUCaucuggacgGGCUcguccgGCCGCUa -3'
miRNA:   3'- -GGCUCGCG----CGCCGU---AG---------CCGG------CGGCGG- -5'
28047 3' -64.2 NC_005887.1 + 4940 0.66 0.260527
Target:  5'- aCCuGGCGUGCaGGCAgUCGcGaCCGCgcagCGCCa -3'
miRNA:   3'- -GGcUCGCGCG-CCGU-AGC-C-GGCG----GCGG- -5'
28047 3' -64.2 NC_005887.1 + 27206 0.66 0.260527
Target:  5'- gUCGAGCGCcuGCauGGgGUCGGUCGgguccgugaCGCCg -3'
miRNA:   3'- -GGCUCGCG--CG--CCgUAGCCGGCg--------GCGG- -5'
28047 3' -64.2 NC_005887.1 + 17469 1.12 0.000072
Target:  5'- aCCGAGCGCGCGGCAUCGGCCGCCGCCu -3'
miRNA:   3'- -GGCUCGCGCGCCGUAGCCGGCGGCGG- -5'
28047 3' -64.2 NC_005887.1 + 27418 0.66 0.280104
Target:  5'- aCGgcAGCGCGCGGCGUgcGUCGaUCGCg -3'
miRNA:   3'- gGC--UCGCGCGCCGUAgcCGGC-GGCGg -5'
28047 3' -64.2 NC_005887.1 + 25942 0.66 0.280104
Target:  5'- cUCGGcCGCGUGaGCuucCGGCCgGCgGCCg -3'
miRNA:   3'- -GGCUcGCGCGC-CGua-GCCGG-CGgCGG- -5'
28047 3' -64.2 NC_005887.1 + 821 0.66 0.277427
Target:  5'- gCCGAGCGCcucGCGGaucuugccgagcacCGUCGacuugccguucgaGCCGgUGCCa -3'
miRNA:   3'- -GGCUCGCG---CGCC--------------GUAGC-------------CGGCgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 40841 0.66 0.273451
Target:  5'- uCCGGGUaCGUGuuccGCA-CGGCCG-CGCCg -3'
miRNA:   3'- -GGCUCGcGCGC----CGUaGCCGGCgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 37751 0.66 0.272793
Target:  5'- gCGAGCaucuguugcaucuGCGCGGCcugcgccUCGGCgGCuugcugCGCCu -3'
miRNA:   3'- gGCUCG-------------CGCGCCGu------AGCCGgCG------GCGG- -5'
28047 3' -64.2 NC_005887.1 + 27342 0.66 0.266926
Target:  5'- gCGAGCaucagcucGgGCGGCAcgccugCGGCCugcGCgGCCu -3'
miRNA:   3'- gGCUCG--------CgCGCCGUa-----GCCGG---CGgCGG- -5'
28047 3' -64.2 NC_005887.1 + 8712 0.66 0.267573
Target:  5'- gCCGAGCGCaGCGcGCGcuaCGGgaaguucgaagaccaCGCCGCg -3'
miRNA:   3'- -GGCUCGCG-CGC-CGUa--GCCg--------------GCGGCGg -5'
28047 3' -64.2 NC_005887.1 + 27095 0.66 0.273451
Target:  5'- gCCGcGCaGCacuGCGGCugccugcuUCgGGCCGCCGUUg -3'
miRNA:   3'- -GGCuCG-CG---CGCCGu-------AG-CCGGCGGCGG- -5'
28047 3' -64.2 NC_005887.1 + 15623 0.66 0.286884
Target:  5'- aUCGuGCGCcCGGUcuauGUCGaGCUGCCcgcgGCCg -3'
miRNA:   3'- -GGCuCGCGcGCCG----UAGC-CGGCGG----CGG- -5'
28047 3' -64.2 NC_005887.1 + 28132 0.66 0.266926
Target:  5'- gCCGAacaGCGCGGCgccgcccuGUCcgaGGCCG-CGCCc -3'
miRNA:   3'- -GGCUcg-CGCGCCG--------UAG---CCGGCgGCGG- -5'
28047 3' -64.2 NC_005887.1 + 12309 0.66 0.286884
Target:  5'- gCUG-GCGCucgccuaugaggGUGGCGUCGGCgCGuUCGUCa -3'
miRNA:   3'- -GGCuCGCG------------CGCCGUAGCCG-GC-GGCGG- -5'
28047 3' -64.2 NC_005887.1 + 32837 0.66 0.273451
Target:  5'- gUGAGCGUGacgacgguguuCGGCAgcaugccggggUCGGCCgggucguucGUCGCCa -3'
miRNA:   3'- gGCUCGCGC-----------GCCGU-----------AGCCGG---------CGGCGG- -5'
28047 3' -64.2 NC_005887.1 + 20545 0.66 0.266926
Target:  5'- cCCGgcAGCGcCGCGGaCGUCGuGuuGauGCCg -3'
miRNA:   3'- -GGC--UCGC-GCGCC-GUAGC-CggCggCGG- -5'
28047 3' -64.2 NC_005887.1 + 40872 0.66 0.260527
Target:  5'- gCGAGCGCcgcacgccGuCGGCGUCGGgcucCUGCuCGCa -3'
miRNA:   3'- gGCUCGCG--------C-GCCGUAGCC----GGCG-GCGg -5'
28047 3' -64.2 NC_005887.1 + 30637 0.66 0.286884
Target:  5'- gCCGuGCGCGCGGCGaagCGaucUUGCgaCGCCu -3'
miRNA:   3'- -GGCuCGCGCGCCGUa--GCc--GGCG--GCGG- -5'
28047 3' -64.2 NC_005887.1 + 23444 0.66 0.280104
Target:  5'- gUGAGCGCuGCGGg--CuGCCGgUGCCg -3'
miRNA:   3'- gGCUCGCG-CGCCguaGcCGGCgGCGG- -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.