miRNA display CGI


Results 1 - 20 of 69 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
6566 3' -54.7 NC_001847.1 + 41658 1.11 0.002432
Target:  5'- cCGCGAGAAGUACCCCUGGAAGAGCACg -3'
miRNA:   3'- -GCGCUCUUCAUGGGGACCUUCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 34661 0.68 0.830133
Target:  5'- gCGcCGAGggGgcgGCCgCgcagcggcaGGAGGAGCGCu -3'
miRNA:   3'- -GC-GCUCuuCa--UGGgGa--------CCUUCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 94631 0.68 0.833539
Target:  5'- gGCGAGcugcucaaaacacucGAGUACggccugCCCgugacGGAAGAGCACc -3'
miRNA:   3'- gCGCUC---------------UUCAUG------GGGa----CCUUCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 4325 0.66 0.928531
Target:  5'- uGCGGGuAGUGCUCCgccauguAGGGCGCc -3'
miRNA:   3'- gCGCUCuUCAUGGGGaccu---UCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 132729 0.73 0.55078
Target:  5'- cCGCGGGG---GCCCCUcGGggGAGgACg -3'
miRNA:   3'- -GCGCUCUucaUGGGGA-CCuuCUCgUG- -5'
6566 3' -54.7 NC_001847.1 + 130199 0.73 0.581646
Target:  5'- gCGCGAuagcGAGGUugCUC-GGggGGGCGCu -3'
miRNA:   3'- -GCGCU----CUUCAugGGGaCCuuCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 114907 0.72 0.654627
Target:  5'- gCGCGGGGGcGaGCCCCUGG---GGCACg -3'
miRNA:   3'- -GCGCUCUU-CaUGGGGACCuucUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 108856 0.7 0.71654
Target:  5'- gGCGGGAGG-ACCCCggcGGu-GAGCAa -3'
miRNA:   3'- gCGCUCUUCaUGGGGa--CCuuCUCGUg -5'
6566 3' -54.7 NC_001847.1 + 59292 0.7 0.736679
Target:  5'- gGCGGGAAaccGUACCCa-GGGugccAGGGCGCg -3'
miRNA:   3'- gCGCUCUU---CAUGGGgaCCU----UCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 134868 0.68 0.820612
Target:  5'- gCGCGGGcucggcggcccccGGGcucggGCCCCUGGGcgccgggcgucGGGGCGCg -3'
miRNA:   3'- -GCGCUC-------------UUCa----UGGGGACCU-----------UCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 83106 0.69 0.794505
Target:  5'- gCGCGAuaauGaGCCCCUGGcgcGAGCGCu -3'
miRNA:   3'- -GCGCUcuu-CaUGGGGACCuu-CUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 100671 0.7 0.726652
Target:  5'- gGCGGGggGU-CCCCaGGAGGcuuucucGCACc -3'
miRNA:   3'- gCGCUCuuCAuGGGGaCCUUCu------CGUG- -5'
6566 3' -54.7 NC_001847.1 + 115479 0.82 0.184616
Target:  5'- gCGCGGGcacgucuGGGcuUGCCCCUGGAAGGGCGCc -3'
miRNA:   3'- -GCGCUC-------UUC--AUGGGGACCUUCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 93028 0.69 0.811768
Target:  5'- aCGCGGGAAGcgGCCCCcggcgccUGGAcGGugccGGCACc -3'
miRNA:   3'- -GCGCUCUUCa-UGGGG-------ACCU-UC----UCGUG- -5'
6566 3' -54.7 NC_001847.1 + 56042 0.75 0.461903
Target:  5'- cCGCGAcGAcg-ACCCCUGGGAG-GCGCc -3'
miRNA:   3'- -GCGCU-CUucaUGGGGACCUUCuCGUG- -5'
6566 3' -54.7 NC_001847.1 + 76413 0.7 0.71654
Target:  5'- cCGCGgcGGggGcACCCCgcGGcGGGAGCGCg -3'
miRNA:   3'- -GCGC--UCuuCaUGGGGa-CC-UUCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 30965 0.69 0.812661
Target:  5'- gCGCGGugcccccuAGUACCCCUGu-GGAGCAg -3'
miRNA:   3'- -GCGCUcu------UCAUGGGGACcuUCUCGUg -5'
6566 3' -54.7 NC_001847.1 + 83927 0.68 0.830133
Target:  5'- cCGCGAGcAGgGCCCgCUcGAAGuGCGCg -3'
miRNA:   3'- -GCGCUCuUCaUGGG-GAcCUUCuCGUG- -5'
6566 3' -54.7 NC_001847.1 + 77663 0.74 0.530481
Target:  5'- aCGCGGgcgccGAGGUACUgCUGGccGAGCGCu -3'
miRNA:   3'- -GCGCU-----CUUCAUGGgGACCuuCUCGUG- -5'
6566 3' -54.7 NC_001847.1 + 54456 0.73 0.59202
Target:  5'- gGCGGGGAcGaGCCCgaGGAGGAGgGCg -3'
miRNA:   3'- gCGCUCUU-CaUGGGgaCCUUCUCgUG- -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.