miRNA display CGI


Results 1 - 17 of 17 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
1399 3' -56 NC_001335.1 + 20445 0.66 0.649048
Target:  5'- --uCCCGGUCAGCGGUccuUCUuCGAAc -3'
miRNA:   3'- uauGGGCUAGUCGCCGc--AGGuGCUUa -5'
1399 3' -56 NC_001335.1 + 12125 0.66 0.626779
Target:  5'- -gGCCaGGUCGGCGGCcuGUCCuuCGAc- -3'
miRNA:   3'- uaUGGgCUAGUCGCCG--CAGGu-GCUua -5'
1399 3' -56 NC_001335.1 + 13026 0.66 0.626779
Target:  5'- --cUCCGGUguGCcgguGCGUCCACGAc- -3'
miRNA:   3'- uauGGGCUAguCGc---CGCAGGUGCUua -5'
1399 3' -56 NC_001335.1 + 7784 0.66 0.615647
Target:  5'- -aGCCaCGAguccUCAGCGGCGUUUACc--- -3'
miRNA:   3'- uaUGG-GCU----AGUCGCCGCAGGUGcuua -5'
1399 3' -56 NC_001335.1 + 11816 0.66 0.615647
Target:  5'- gGUGCCguUGAUC-GCGGCGUUguCGAAc -3'
miRNA:   3'- -UAUGG--GCUAGuCGCCGCAGguGCUUa -5'
1399 3' -56 NC_001335.1 + 39977 0.66 0.593437
Target:  5'- -cACCCGcua--CGGCGUCUACGAAg -3'
miRNA:   3'- uaUGGGCuagucGCCGCAGGUGCUUa -5'
1399 3' -56 NC_001335.1 + 36860 0.67 0.57136
Target:  5'- -aGCCCGAcUCcgagcagugcaAGCGGCGguUCCugGAGc -3'
miRNA:   3'- uaUGGGCU-AG-----------UCGCCGC--AGGugCUUa -5'
1399 3' -56 NC_001335.1 + 35624 0.67 0.57136
Target:  5'- cGUGCUCGGUCAGCGacuuGUGagCGCGGAa -3'
miRNA:   3'- -UAUGGGCUAGUCGC----CGCagGUGCUUa -5'
1399 3' -56 NC_001335.1 + 46376 0.67 0.5593
Target:  5'- -gACCCGGuacgaccUCAGCGGCuauGcCCACGGu- -3'
miRNA:   3'- uaUGGGCU-------AGUCGCCG---CaGGUGCUua -5'
1399 3' -56 NC_001335.1 + 14202 0.67 0.538646
Target:  5'- --gUCUGAUCAGgcuCGGCGUCCGCa--- -3'
miRNA:   3'- uauGGGCUAGUC---GCCGCAGGUGcuua -5'
1399 3' -56 NC_001335.1 + 36757 0.68 0.527879
Target:  5'- -gACCUGGcgCAGCGGC-UCCAgGAAc -3'
miRNA:   3'- uaUGGGCUa-GUCGCCGcAGGUgCUUa -5'
1399 3' -56 NC_001335.1 + 37941 0.69 0.465196
Target:  5'- -cGCCCGGUCGGUGGCGaagacgCUGcCGAAc -3'
miRNA:   3'- uaUGGGCUAGUCGCCGCa-----GGU-GCUUa -5'
1399 3' -56 NC_001335.1 + 28011 0.69 0.465196
Target:  5'- uGUGCUCGGUCAaCGGCGUCCcagguAUGGGa -3'
miRNA:   3'- -UAUGGGCUAGUcGCCGCAGG-----UGCUUa -5'
1399 3' -56 NC_001335.1 + 36801 0.7 0.379101
Target:  5'- -gGCCCGGU---UGGUGUCCACGAGg -3'
miRNA:   3'- uaUGGGCUAgucGCCGCAGGUGCUUa -5'
1399 3' -56 NC_001335.1 + 12379 0.73 0.267974
Target:  5'- -aACCUGGaucaggcuUCGGUGGCGUCCACGu-- -3'
miRNA:   3'- uaUGGGCU--------AGUCGCCGCAGGUGCuua -5'
1399 3' -56 NC_001335.1 + 5965 0.76 0.170097
Target:  5'- cUACCCGG-CAGCGGCGUUCcCGAu- -3'
miRNA:   3'- uAUGGGCUaGUCGCCGCAGGuGCUua -5'
1399 3' -56 NC_001335.1 + 40047 1.04 0.001467
Target:  5'- gAUACCCGAUCAGCGGCGUCCACGAAUg -3'
miRNA:   3'- -UAUGGGCUAGUCGCCGCAGGUGCUUA- -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.