miRNA display CGI


Results 1 - 20 of 28 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
8204 3' -56 NC_001978.2 + 31745 0.66 0.638615
Target:  5'- cCGCUcaaACGACGcaaugucauaAAGGGCgUCGuCGGCGAa -3'
miRNA:   3'- -GUGA---UGCUGC----------UUCUCG-GGCuGCCGCU- -5'
8204 3' -56 NC_001978.2 + 25877 0.66 0.627531
Target:  5'- aCGCUGCGccugaGCGAAGGGCuuGcCGGgCa- -3'
miRNA:   3'- -GUGAUGC-----UGCUUCUCGggCuGCC-Gcu -5'
8204 3' -56 NC_001978.2 + 9284 0.66 0.616451
Target:  5'- ---gGCGACGAAGuuGGgCCGACGuCGAa -3'
miRNA:   3'- gugaUGCUGCUUC--UCgGGCUGCcGCU- -5'
8204 3' -56 NC_001978.2 + 4606 0.66 0.616451
Target:  5'- uGCU-CGACGguGGGCagCGACgGGCGGa -3'
miRNA:   3'- gUGAuGCUGCuuCUCGg-GCUG-CCGCU- -5'
8204 3' -56 NC_001978.2 + 14102 0.66 0.616451
Target:  5'- uGCUGCGGuCGAGcguaAGCCUGACGugcucGCGAa -3'
miRNA:   3'- gUGAUGCU-GCUUc---UCGGGCUGC-----CGCU- -5'
8204 3' -56 NC_001978.2 + 4337 0.66 0.616451
Target:  5'- ----cCGACGcgcgcucuucAAGGGUgCCGACGGCGAa -3'
miRNA:   3'- gugauGCUGC----------UUCUCG-GGCUGCCGCU- -5'
8204 3' -56 NC_001978.2 + 2556 0.66 0.605385
Target:  5'- aCGCgugccgugACGGuCGAcuGAGCCaCGACGGCa- -3'
miRNA:   3'- -GUGa-------UGCU-GCUu-CUCGG-GCUGCCGcu -5'
8204 3' -56 NC_001978.2 + 41194 0.67 0.570175
Target:  5'- aCGCUGCGGCGAAGAugcgucguGCUauccguaaggcaGugGGCGc -3'
miRNA:   3'- -GUGAUGCUGCUUCU--------CGGg-----------CugCCGCu -5'
8204 3' -56 NC_001978.2 + 4777 0.67 0.561444
Target:  5'- uCGCgccgcCGACuGAAGAgcgcgauucccaGCCgGACGGCGAc -3'
miRNA:   3'- -GUGau---GCUG-CUUCU------------CGGgCUGCCGCU- -5'
8204 3' -56 NC_001978.2 + 16315 0.67 0.550583
Target:  5'- aCGCUGCgGACGGAGuugccccGCUCGACuccGCGAa -3'
miRNA:   3'- -GUGAUG-CUGCUUCu------CGGGCUGc--CGCU- -5'
8204 3' -56 NC_001978.2 + 19290 0.67 0.539786
Target:  5'- uCACUACu-CGAccacGCCCGACGGCu- -3'
miRNA:   3'- -GUGAUGcuGCUucu-CGGGCUGCCGcu -5'
8204 3' -56 NC_001978.2 + 37836 0.68 0.518418
Target:  5'- uGCUACcggacguggGGCGAAGuGCCCcuuguCGGCGGg -3'
miRNA:   3'- gUGAUG---------CUGCUUCuCGGGcu---GCCGCU- -5'
8204 3' -56 NC_001978.2 + 40136 0.68 0.487026
Target:  5'- gACaACGAucuugucuaCGAAGAGCCCGACGaacacGCGc -3'
miRNA:   3'- gUGaUGCU---------GCUUCUCGGGCUGC-----CGCu -5'
8204 3' -56 NC_001978.2 + 7192 0.68 0.487026
Target:  5'- gUACU-CGACGccGGAGCCgguucgcuucUGACGGCGGc -3'
miRNA:   3'- -GUGAuGCUGCu-UCUCGG----------GCUGCCGCU- -5'
8204 3' -56 NC_001978.2 + 25114 0.69 0.446634
Target:  5'- gGCaguCaGCGAAGAGCCgGACGGgGGu -3'
miRNA:   3'- gUGau-GcUGCUUCUCGGgCUGCCgCU- -5'
8204 3' -56 NC_001978.2 + 13182 0.69 0.436829
Target:  5'- uGCUccGCGACGgcGAaCCCGACuggGGCGGc -3'
miRNA:   3'- gUGA--UGCUGCuuCUcGGGCUG---CCGCU- -5'
8204 3' -56 NC_001978.2 + 979 0.69 0.42715
Target:  5'- gCGCUucuCGGCG-GGAGUCUGGCGGgGGc -3'
miRNA:   3'- -GUGAu--GCUGCuUCUCGGGCUGCCgCU- -5'
8204 3' -56 NC_001978.2 + 1483 0.7 0.408178
Target:  5'- gCGCUGCcACGGaaGGAGCCgGAacggcugacCGGCGAa -3'
miRNA:   3'- -GUGAUGcUGCU--UCUCGGgCU---------GCCGCU- -5'
8204 3' -56 NC_001978.2 + 15728 0.7 0.371859
Target:  5'- uCACUAUGugGgcGaAGUCgGGCGGCGu -3'
miRNA:   3'- -GUGAUGCugCuuC-UCGGgCUGCCGCu -5'
8204 3' -56 NC_001978.2 + 10509 0.71 0.354544
Target:  5'- gCAUUGgGAC-AAGAGCCgGuCGGCGAc -3'
miRNA:   3'- -GUGAUgCUGcUUCUCGGgCuGCCGCU- -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.