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
23066 3' -60.3 NC_005178.1 + 3942 0.66 0.374353
Target:  5'- gCGGCGGCGGC-CGGUGuuCGGGUc-- -3'
miRNA:   3'- gGUCGCCGUCGaGCCGCc-GCUCAuca -5'
23066 3' -60.3 NC_005178.1 + 12689 0.66 0.374353
Target:  5'- gCCuGCGGCcuGCUC-GCGGCGcGUAu- -3'
miRNA:   3'- -GGuCGCCGu-CGAGcCGCCGCuCAUca -5'
23066 3' -60.3 NC_005178.1 + 36128 0.66 0.374353
Target:  5'- gCUGGCGGguGCa-GGUGGCGAacgAGg -3'
miRNA:   3'- -GGUCGCCguCGagCCGCCGCUca-UCa -5'
23066 3' -60.3 NC_005178.1 + 30274 0.66 0.332416
Target:  5'- aCAGCGGCGGCggcagCGuGCuGCGGcUAGa -3'
miRNA:   3'- gGUCGCCGUCGa----GC-CGcCGCUcAUCa -5'
23066 3' -60.3 NC_005178.1 + 28297 0.67 0.294032
Target:  5'- -aGGCGGCAGCggccuggauagCGGCGGCGc----- -3'
miRNA:   3'- ggUCGCCGUCGa----------GCCGCCGCucauca -5'
23066 3' -60.3 NC_005178.1 + 15403 0.67 0.294032
Target:  5'- -aGGUGGCcGCaUgGGCGGCGAcUGGUa -3'
miRNA:   3'- ggUCGCCGuCG-AgCCGCCGCUcAUCA- -5'
23066 3' -60.3 NC_005178.1 + 37491 0.67 0.279675
Target:  5'- aCCAGCGcgaaugcaucgaGCAGCUCGGCcgauuccuGCGGGaGGg -3'
miRNA:   3'- -GGUCGC------------CGUCGAGCCGc-------CGCUCaUCa -5'
23066 3' -60.3 NC_005178.1 + 31131 0.68 0.265881
Target:  5'- uCCAG-GGCAGCaaaacccagCGGCGGCGAc---- -3'
miRNA:   3'- -GGUCgCCGUCGa--------GCCGCCGCUcauca -5'
23066 3' -60.3 NC_005178.1 + 10286 0.68 0.259193
Target:  5'- gUAGuCGaGCAGCUCGGCGGCa------ -3'
miRNA:   3'- gGUC-GC-CGUCGAGCCGCCGcucauca -5'
23066 3' -60.3 NC_005178.1 + 20568 0.68 0.248779
Target:  5'- gCCAggucGCGGC-GCUgaccucucgccucaaCGGCGGCGAGcUGGa -3'
miRNA:   3'- -GGU----CGCCGuCGA---------------GCCGCCGCUC-AUCa -5'
23066 3' -60.3 NC_005178.1 + 1276 0.68 0.24623
Target:  5'- aCAG-GGCucagguccAGCgCGGCGGCGAGUGc- -3'
miRNA:   3'- gGUCgCCG--------UCGaGCCGCCGCUCAUca -5'
23066 3' -60.3 NC_005178.1 + 20536 0.69 0.233809
Target:  5'- uUCAGCugGGCGGUggCGGCGGCGAu---- -3'
miRNA:   3'- -GGUCG--CCGUCGa-GCCGCCGCUcauca -5'
23066 3' -60.3 NC_005178.1 + 25403 0.69 0.210548
Target:  5'- aCCAGCaGGCGGCcCGGaucaaGGCGA-UGGUc -3'
miRNA:   3'- -GGUCG-CCGUCGaGCCg----CCGCUcAUCA- -5'
23066 3' -60.3 NC_005178.1 + 24220 0.69 0.210548
Target:  5'- gCCAGCcacCAGgUCGGCGGgGAGUAc- -3'
miRNA:   3'- -GGUCGcc-GUCgAGCCGCCgCUCAUca -5'
23066 3' -60.3 NC_005178.1 + 22315 0.69 0.210548
Target:  5'- gCCAGCcuGGCGG-UCGGCuuGGCG-GUAGUu -3'
miRNA:   3'- -GGUCG--CCGUCgAGCCG--CCGCuCAUCA- -5'
23066 3' -60.3 NC_005178.1 + 10853 0.7 0.199682
Target:  5'- --cGCGGCugGGCUCggccaggauGGCGGCGGcGUAGUc -3'
miRNA:   3'- gguCGCCG--UCGAG---------CCGCCGCU-CAUCA- -5'
23066 3' -60.3 NC_005178.1 + 12651 0.71 0.165425
Target:  5'- aCGGCucGGCGGC-CGGCgcgcuGGCGGGUGGc -3'
miRNA:   3'- gGUCG--CCGUCGaGCCG-----CCGCUCAUCa -5'
23066 3' -60.3 NC_005178.1 + 22750 0.72 0.125636
Target:  5'- cCCGGCGaucCAGCUCGGCcugGGCGAGg--- -3'
miRNA:   3'- -GGUCGCc--GUCGAGCCG---CCGCUCauca -5'
23066 3' -60.3 NC_005178.1 + 22987 0.74 0.094873
Target:  5'- gCCAGCGGCAGCUgguagcgGGCGuGCaGGUGGa -3'
miRNA:   3'- -GGUCGCCGUCGAg------CCGC-CGcUCAUCa -5'
23066 3' -60.3 NC_005178.1 + 20300 0.74 0.089641
Target:  5'- --cGCGGCcGCUCGGCGuGCGAG-AGg -3'
miRNA:   3'- gguCGCCGuCGAGCCGC-CGCUCaUCa -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.