miRNA display CGI


Results 1 - 16 of 16 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
20423 5' -56.9 NC_004688.1 + 109583 0.66 0.842509
Target:  5'- uCGAGC-CGGCCccggcGAUCUCGUGG-GAc- -3'
miRNA:   3'- -GCUCGuGCUGG-----CUAGGGCACCgCUuc -5'
20423 5' -56.9 NC_004688.1 + 48576 0.66 0.834292
Target:  5'- aCGAGCucucUGACCacaaGggCCCGUGGgGGAa -3'
miRNA:   3'- -GCUCGu---GCUGG----CuaGGGCACCgCUUc -5'
20423 5' -56.9 NC_004688.1 + 101048 0.66 0.834292
Target:  5'- gGAGgACGuCuCGggCCUGcUGGCGAAGc -3'
miRNA:   3'- gCUCgUGCuG-GCuaGGGC-ACCGCUUC- -5'
20423 5' -56.9 NC_004688.1 + 26045 0.66 0.834292
Target:  5'- gGGGCACGGcuCCGGggaggCCCGUGGgCa--- -3'
miRNA:   3'- gCUCGUGCU--GGCUa----GGGCACC-Gcuuc -5'
20423 5' -56.9 NC_004688.1 + 69359 0.66 0.808559
Target:  5'- uGGGCAuuUGACUGcgguuucUCCgGUGGUGAAGa -3'
miRNA:   3'- gCUCGU--GCUGGCu------AGGgCACCGCUUC- -5'
20423 5' -56.9 NC_004688.1 + 9055 0.67 0.799649
Target:  5'- gGAGCGCaGGCCGAcgCUgGUGGuCGGGu -3'
miRNA:   3'- gCUCGUG-CUGGCUa-GGgCACC-GCUUc -5'
20423 5' -56.9 NC_004688.1 + 105725 0.67 0.799649
Target:  5'- uGGGuCACGACgGcGUCCCuGUGGUGcAGa -3'
miRNA:   3'- gCUC-GUGCUGgC-UAGGG-CACCGCuUC- -5'
20423 5' -56.9 NC_004688.1 + 73498 0.67 0.799649
Target:  5'- gGuGCACG-CCGcgCCCuGcGGCGggGc -3'
miRNA:   3'- gCuCGUGCuGGCuaGGG-CaCCGCuuC- -5'
20423 5' -56.9 NC_004688.1 + 30366 0.67 0.790586
Target:  5'- aGGuCGCGGCCGAUCUCGUagGGCa--- -3'
miRNA:   3'- gCUcGUGCUGGCUAGGGCA--CCGcuuc -5'
20423 5' -56.9 NC_004688.1 + 36076 0.67 0.790586
Target:  5'- gCGGcCAUG-CCGAUCUCGggGGUGAGGg -3'
miRNA:   3'- -GCUcGUGCuGGCUAGGGCa-CCGCUUC- -5'
20423 5' -56.9 NC_004688.1 + 19620 0.67 0.781379
Target:  5'- aGaAGUACGAUgGAUgCCGgGGCGAAu -3'
miRNA:   3'- gC-UCGUGCUGgCUAgGGCaCCGCUUc -5'
20423 5' -56.9 NC_004688.1 + 31649 0.67 0.770155
Target:  5'- aGGGCGgacagcuCGGCCGAggUcuugggcgccuccCCCGUGGUGggGg -3'
miRNA:   3'- gCUCGU-------GCUGGCU--A-------------GGGCACCGCuuC- -5'
20423 5' -56.9 NC_004688.1 + 51419 0.68 0.743298
Target:  5'- uGAGCGCGccaaggcugcGCUGGUCgacuacgaaGUGGCGAAGg -3'
miRNA:   3'- gCUCGUGC----------UGGCUAGgg-------CACCGCUUC- -5'
20423 5' -56.9 NC_004688.1 + 20891 0.7 0.632276
Target:  5'- gCGAccGCaACGGCCGugggCgCCGUGGCGAAc -3'
miRNA:   3'- -GCU--CG-UGCUGGCua--G-GGCACCGCUUc -5'
20423 5' -56.9 NC_004688.1 + 88231 0.7 0.622011
Target:  5'- aCGAGguCGGCCGggCUgaCGgugagGGCGAAGg -3'
miRNA:   3'- -GCUCguGCUGGCuaGG--GCa----CCGCUUC- -5'
20423 5' -56.9 NC_004688.1 + 14187 1.08 0.00241
Target:  5'- uCGAGCACGACCGAUCCCGUGGCGAAGc -3'
miRNA:   3'- -GCUCGUGCUGGCUAGGGCACCGCUUC- -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.