miRNA display CGI


Results 1 - 19 of 19 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
12357 3' -58.1 NC_003324.1 + 35229 0.66 0.577014
Target:  5'- -cGGCGcCGAaggUGACGaAGGCGCUgAGg -3'
miRNA:   3'- uaCCGCcGCUa--GCUGC-UCCGUGAgUC- -5'
12357 3' -58.1 NC_003324.1 + 22222 0.66 0.534526
Target:  5'- -cGGCgaGGCGGaCGACGAcGGCAauCUCAu -3'
miRNA:   3'- uaCCG--CCGCUaGCUGCU-CCGU--GAGUc -5'
12357 3' -58.1 NC_003324.1 + 52222 0.67 0.503398
Target:  5'- cAUGGCGG-GuUCGGCGGGcuauCACUCGGc -3'
miRNA:   3'- -UACCGCCgCuAGCUGCUCc---GUGAGUC- -5'
12357 3' -58.1 NC_003324.1 + 7860 0.67 0.493196
Target:  5'- -cGGCGGCaaagcccguugcGAUCGcgccucccuGCGAGGCGugcuCUCGGa -3'
miRNA:   3'- uaCCGCCG------------CUAGC---------UGCUCCGU----GAGUC- -5'
12357 3' -58.1 NC_003324.1 + 4504 0.67 0.473083
Target:  5'- -cGGCGGCGAcgCGACuacuaAGGC-CUCGa -3'
miRNA:   3'- uaCCGCCGCUa-GCUGc----UCCGuGAGUc -5'
12357 3' -58.1 NC_003324.1 + 47709 0.67 0.470102
Target:  5'- gAUGGCGGCccggucgccgucauGcgCGGCGuGGUaaaGCUCGGa -3'
miRNA:   3'- -UACCGCCG--------------CuaGCUGCuCCG---UGAGUC- -5'
12357 3' -58.1 NC_003324.1 + 45997 0.67 0.463183
Target:  5'- -aGGCcuCGAuuUCGGCGAGGUACUCu- -3'
miRNA:   3'- uaCCGccGCU--AGCUGCUCCGUGAGuc -5'
12357 3' -58.1 NC_003324.1 + 21893 0.68 0.443716
Target:  5'- -aGGCGGaCGAcggCGACGAGaaagcacaggaaGCGCUCGa -3'
miRNA:   3'- uaCCGCC-GCUa--GCUGCUC------------CGUGAGUc -5'
12357 3' -58.1 NC_003324.1 + 25325 0.68 0.434156
Target:  5'- cUGGUGGaCGAuUCGGCaGAGGCguAUUCAGc -3'
miRNA:   3'- uACCGCC-GCU-AGCUG-CUCCG--UGAGUC- -5'
12357 3' -58.1 NC_003324.1 + 20599 0.68 0.424717
Target:  5'- -gGGCGcuuGCGGUCGGCG-GGCACg--- -3'
miRNA:   3'- uaCCGC---CGCUAGCUGCuCCGUGaguc -5'
12357 3' -58.1 NC_003324.1 + 7102 0.68 0.415402
Target:  5'- uUGGC-GCGAaagCGACGAGGuCACgaUCAGu -3'
miRNA:   3'- uACCGcCGCUa--GCUGCUCC-GUG--AGUC- -5'
12357 3' -58.1 NC_003324.1 + 22961 0.69 0.406213
Target:  5'- -cGGUGGCGAUgCGAgCGAacaGGCGCUUg- -3'
miRNA:   3'- uaCCGCCGCUA-GCU-GCU---CCGUGAGuc -5'
12357 3' -58.1 NC_003324.1 + 6220 0.69 0.38557
Target:  5'- -aGGCGGCGcgggucaguccgcuAUCGGCGuAGGCGCg--- -3'
miRNA:   3'- uaCCGCCGC--------------UAGCUGC-UCCGUGaguc -5'
12357 3' -58.1 NC_003324.1 + 23550 0.72 0.264045
Target:  5'- cGUGGCGGCGGgcgcgcUCGGCGAcGGUACa--- -3'
miRNA:   3'- -UACCGCCGCU------AGCUGCU-CCGUGaguc -5'
12357 3' -58.1 NC_003324.1 + 4600 0.73 0.226537
Target:  5'- -cGGUGGCG-UCGAuCGAGGC-CUUAGu -3'
miRNA:   3'- uaCCGCCGCuAGCU-GCUCCGuGAGUC- -5'
12357 3' -58.1 NC_003324.1 + 12249 0.74 0.183643
Target:  5'- gAUGGCGGCGuUCGuuG-GGCGCUCGa -3'
miRNA:   3'- -UACCGCCGCuAGCugCuCCGUGAGUc -5'
12357 3' -58.1 NC_003324.1 + 13161 0.76 0.129165
Target:  5'- -cGGCGGCGGUCGGCGGcggcGGUAC-CGGc -3'
miRNA:   3'- uaCCGCCGCUAGCUGCU----CCGUGaGUC- -5'
12357 3' -58.1 NC_003324.1 + 17160 0.77 0.109417
Target:  5'- cAUGGCccaGCGAUUGACGAGGCGCUg-- -3'
miRNA:   3'- -UACCGc--CGCUAGCUGCUCCGUGAguc -5'
12357 3' -58.1 NC_003324.1 + 26923 1.06 0.00092
Target:  5'- cAUGGCGGCGAUCGACGAGGCACUCAGc -3'
miRNA:   3'- -UACCGCCGCUAGCUGCUCCGUGAGUC- -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.