miRNA display CGI


Results 1 - 20 of 22 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
15527 3' -49.7 NC_004001.2 + 25132 0.66 0.826738
Target:  5'- aGGUAGCAGUgacuccauAGCGGCGGggggcacUCGCGGuAGg -3'
miRNA:   3'- -UCGUCGUCG--------UCGUCGUU-------AGUGUUuUC- -5'
15527 3' -49.7 NC_004001.2 + 9328 0.66 0.817591
Target:  5'- cGCGGCGGCGGC-GCAugguuUCAguGAc- -3'
miRNA:   3'- uCGUCGUCGUCGuCGUu----AGUguUUuc -5'
15527 3' -49.7 NC_004001.2 + 15829 0.66 0.811385
Target:  5'- cGCAGCGGCgacuauugccgacauGGCc-CAAUCGCGAAGa -3'
miRNA:   3'- uCGUCGUCG---------------UCGucGUUAGUGUUUUc -5'
15527 3' -49.7 NC_004001.2 + 13213 0.66 0.807201
Target:  5'- cGCGGUAGCacccaugaccccGGaCAGCGAU-GCAGAAGa -3'
miRNA:   3'- uCGUCGUCG------------UC-GUCGUUAgUGUUUUC- -5'
15527 3' -49.7 NC_004001.2 + 12986 0.67 0.796587
Target:  5'- uAGCGGCAGCucuguGCaAGUAGUC-CAGcAGu -3'
miRNA:   3'- -UCGUCGUCGu----CG-UCGUUAGuGUUuUC- -5'
15527 3' -49.7 NC_004001.2 + 16941 0.67 0.752179
Target:  5'- uGCAGguGUcuuGCGGCGAcgGCGGGAGg -3'
miRNA:   3'- uCGUCguCGu--CGUCGUUagUGUUUUC- -5'
15527 3' -49.7 NC_004001.2 + 4493 0.68 0.729015
Target:  5'- gGGCAGCGGC-GCGgGCAAaCACGu--- -3'
miRNA:   3'- -UCGUCGUCGuCGU-CGUUaGUGUuuuc -5'
15527 3' -49.7 NC_004001.2 + 26136 0.68 0.705378
Target:  5'- -cCAGCAGCGGCAGUuagaaAAUaCACAAcAAGu -3'
miRNA:   3'- ucGUCGUCGUCGUCG-----UUA-GUGUU-UUC- -5'
15527 3' -49.7 NC_004001.2 + 25221 0.68 0.69342
Target:  5'- uGCAGCGGCAGUgacacuccAGCAAgccgucuccgcUCACAu--- -3'
miRNA:   3'- uCGUCGUCGUCG--------UCGUU-----------AGUGUuuuc -5'
15527 3' -49.7 NC_004001.2 + 32793 0.68 0.69342
Target:  5'- uGGCAaCAGCGGguGgucuuCAGUCAUAGAAGc -3'
miRNA:   3'- -UCGUcGUCGUCguC-----GUUAGUGUUUUC- -5'
15527 3' -49.7 NC_004001.2 + 1924 0.69 0.68139
Target:  5'- aAGCcaCAGCAGCAGCAGUUcuACcuGGGg -3'
miRNA:   3'- -UCGucGUCGUCGUCGUUAG--UGuuUUC- -5'
15527 3' -49.7 NC_004001.2 + 23248 0.69 0.63284
Target:  5'- gGGCAGaGGUGGaGGCGAUUGCGAAGGg -3'
miRNA:   3'- -UCGUCgUCGUCgUCGUUAGUGUUUUC- -5'
15527 3' -49.7 NC_004001.2 + 7960 0.7 0.596368
Target:  5'- cGCAGUAGUcGCAGCGuugCACGGGu- -3'
miRNA:   3'- uCGUCGUCGuCGUCGUua-GUGUUUuc -5'
15527 3' -49.7 NC_004001.2 + 30572 0.7 0.584269
Target:  5'- cAGCAgGguGUAGguGCAcucgauggaAUCGCAGGAGc -3'
miRNA:   3'- -UCGU-CguCGUCguCGU---------UAGUGUUUUC- -5'
15527 3' -49.7 NC_004001.2 + 28761 0.72 0.501526
Target:  5'- cAGCGGUGGCAGUGGUGAUgGCAc--- -3'
miRNA:   3'- -UCGUCGUCGUCGUCGUUAgUGUuuuc -5'
15527 3' -49.7 NC_004001.2 + 11679 0.73 0.445684
Target:  5'- gAGCugacuuGCAGUGGCAGCcuAGUCGCAGGGc -3'
miRNA:   3'- -UCGu-----CGUCGUCGUCG--UUAGUGUUUUc -5'
15527 3' -49.7 NC_004001.2 + 18001 0.73 0.413892
Target:  5'- -aCAGCAGUAGCAGCAGggGgAGGGGg -3'
miRNA:   3'- ucGUCGUCGUCGUCGUUagUgUUUUC- -5'
15527 3' -49.7 NC_004001.2 + 13740 0.74 0.358448
Target:  5'- uGCAGCAGCAGCAggcgacggcggugauGCAAUCcccACugGAGg -3'
miRNA:   3'- uCGUCGUCGUCGU---------------CGUUAG---UGuuUUC- -5'
15527 3' -49.7 NC_004001.2 + 27259 0.77 0.234036
Target:  5'- aAGCAGCgaaAGCGGCGGCAguggucuagauGUCGCAGccGAGa -3'
miRNA:   3'- -UCGUCG---UCGUCGUCGU-----------UAGUGUU--UUC- -5'
15527 3' -49.7 NC_004001.2 + 10777 0.79 0.185025
Target:  5'- cGGCGGCAGUuGCAGUAGUUGCAGGGa -3'
miRNA:   3'- -UCGUCGUCGuCGUCGUUAGUGUUUUc -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.