miRNA display CGI


Results 1 - 20 of 27 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
23329 3' -53.1 NC_005259.1 + 153 0.66 0.90584
Target:  5'- aCUGggcUCGCccgGCgggGUCCGGCACCa -3'
miRNA:   3'- gGGCaa-AGCGcu-UGa--CAGGCUGUGGc -5'
23329 3' -53.1 NC_005259.1 + 1692 0.66 0.90584
Target:  5'- gCCCGcaagCGCGAACUcaagcgCCGccuCGCCGa -3'
miRNA:   3'- -GGGCaaa-GCGCUUGAca----GGCu--GUGGC- -5'
23329 3' -53.1 NC_005259.1 + 1893 0.67 0.84495
Target:  5'- gCCGagaucgCGCGAGCUG-CCGaggaagcGCGCCGc -3'
miRNA:   3'- gGGCaaa---GCGCUUGACaGGC-------UGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 6483 0.66 0.90584
Target:  5'- aCCCGcucaCGCGGguacuGCUGgcccacaucgaCCGACGCCGu -3'
miRNA:   3'- -GGGCaaa-GCGCU-----UGACa----------GGCUGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 6667 0.68 0.810413
Target:  5'- gUCCGUgacgCGCGAGCUGcCCGcuuCCa -3'
miRNA:   3'- -GGGCAaa--GCGCUUGACaGGCuguGGc -5'
23329 3' -53.1 NC_005259.1 + 8033 1.1 0.002359
Target:  5'- cCCCGUUUCGCGAACUGUCCGACACCGc -3'
miRNA:   3'- -GGGCAAAGCGCUUGACAGGCUGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 10493 0.66 0.899198
Target:  5'- gUCGUggUUGUugGggUUGUCCGGCACgGg -3'
miRNA:   3'- gGGCAa-AGCG--CuuGACAGGCUGUGgC- -5'
23329 3' -53.1 NC_005259.1 + 11861 0.68 0.83725
Target:  5'- aCCCGUcg-GCGAACgUGaCCGccGCACCGu -3'
miRNA:   3'- -GGGCAaagCGCUUG-ACaGGC--UGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 13541 0.66 0.8923
Target:  5'- aCCaagcagUUCGCGAugUGgcccgCCGACcCCGc -3'
miRNA:   3'- -GGgca---AAGCGCUugACa----GGCUGuGGC- -5'
23329 3' -53.1 NC_005259.1 + 14336 0.71 0.657664
Target:  5'- gCCCGcg-UGCGGGCcG-CCGACGCCa -3'
miRNA:   3'- -GGGCaaaGCGCUUGaCaGGCUGUGGc -5'
23329 3' -53.1 NC_005259.1 + 18304 0.66 0.899198
Target:  5'- gCCGUUcUGCccGgUGUgCGACACCGa -3'
miRNA:   3'- gGGCAAaGCGcuUgACAgGCUGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 20816 0.69 0.752182
Target:  5'- uCCCG--UCGCGGcgcaccaagGCUgaccgugaGUCCGACGCCu -3'
miRNA:   3'- -GGGCaaAGCGCU---------UGA--------CAGGCUGUGGc -5'
23329 3' -53.1 NC_005259.1 + 21696 0.67 0.862232
Target:  5'- aUCCGUUUCGaGGACggGUCaGACgACCGc -3'
miRNA:   3'- -GGGCAAAGCgCUUGa-CAGgCUG-UGGC- -5'
23329 3' -53.1 NC_005259.1 + 23100 0.71 0.65659
Target:  5'- aCCGgucgagauggUCGUGAuugaucuGCUGUCCGGCAgCGa -3'
miRNA:   3'- gGGCaa--------AGCGCU-------UGACAGGCUGUgGC- -5'
23329 3' -53.1 NC_005259.1 + 26123 0.67 0.845794
Target:  5'- gCCGccggUCGCcg---GUCCGACGCCGc -3'
miRNA:   3'- gGGCaa--AGCGcuugaCAGGCUGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 26386 0.76 0.402895
Target:  5'- gCCUGUUgcUCGCGAu---UCCGACGCCGg -3'
miRNA:   3'- -GGGCAA--AGCGCUugacAGGCUGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 29846 0.74 0.488848
Target:  5'- aUCCG-UUCGCucGCUGUCgGGCAUCGa -3'
miRNA:   3'- -GGGCaAAGCGcuUGACAGgCUGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 30244 0.67 0.87775
Target:  5'- aCCCGUga-GCGGAUcugGUUCGACugacaugcACCGg -3'
miRNA:   3'- -GGGCAaagCGCUUGa--CAGGCUG--------UGGC- -5'
23329 3' -53.1 NC_005259.1 + 30743 0.71 0.668393
Target:  5'- aCCUGagagUUCaUGAACUGcaugCCGACGCCGg -3'
miRNA:   3'- -GGGCa---AAGcGCUUGACa---GGCUGUGGC- -5'
23329 3' -53.1 NC_005259.1 + 35843 0.71 0.67909
Target:  5'- aCCGcc-CGCGAGCacagGUCCGcCGCCGc -3'
miRNA:   3'- gGGCaaaGCGCUUGa---CAGGCuGUGGC- -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.