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
7643 3' -53.5 NC_001973.1 + 64104 0.66 0.977912
Target:  5'- --aACAGGCCgacGGCUCG-ACGGGgcggugCCg -3'
miRNA:   3'- gacUGUUUGGa--UCGAGCcUGCCCa-----GG- -5'
7643 3' -53.5 NC_001973.1 + 59535 0.66 0.977912
Target:  5'- -aGACGAugC--GCUUGGACGcGG-CCa -3'
miRNA:   3'- gaCUGUUugGauCGAGCCUGC-CCaGG- -5'
7643 3' -53.5 NC_001973.1 + 140973 0.66 0.972823
Target:  5'- -cGACAucACCUu-CUCGGACGaGG-CCg -3'
miRNA:   3'- gaCUGUu-UGGAucGAGCCUGC-CCaGG- -5'
7643 3' -53.5 NC_001973.1 + 21530 0.66 0.969982
Target:  5'- -cGACGuGCCUgaucucGGCgUCGGGCGcgccguGGUCCc -3'
miRNA:   3'- gaCUGUuUGGA------UCG-AGCCUGC------CCAGG- -5'
7643 3' -53.5 NC_001973.1 + 153342 0.66 0.968179
Target:  5'- cCUGAaaaucGCCaagAGCgaggucgauuucgacUCGGACGGGUCg -3'
miRNA:   3'- -GACUguu--UGGa--UCG---------------AGCCUGCCCAGg -5'
7643 3' -53.5 NC_001973.1 + 131777 0.67 0.963676
Target:  5'- uUGACGAcggcgGCC-GGCUCGGugaaGGGgCCg -3'
miRNA:   3'- gACUGUU-----UGGaUCGAGCCug--CCCaGG- -5'
7643 3' -53.5 NC_001973.1 + 145127 0.67 0.960199
Target:  5'- uUGAC-GGCCgagcaGGCUCuGGACucGGUCCg -3'
miRNA:   3'- gACUGuUUGGa----UCGAG-CCUGc-CCAGG- -5'
7643 3' -53.5 NC_001973.1 + 127495 0.67 0.948412
Target:  5'- aUGACAucauGCCUaaacugAGCUCGG-CGGG-Cg -3'
miRNA:   3'- gACUGUu---UGGA------UCGAGCCuGCCCaGg -5'
7643 3' -53.5 NC_001973.1 + 58476 0.68 0.934516
Target:  5'- gCUGcCAAACgU-GCUCGG-CGGG-CCg -3'
miRNA:   3'- -GACuGUUUGgAuCGAGCCuGCCCaGG- -5'
7643 3' -53.5 NC_001973.1 + 150864 0.68 0.929404
Target:  5'- uCUGucCGGGCCUGGC-CGGAgcCGGGgcgcguUCCa -3'
miRNA:   3'- -GACu-GUUUGGAUCGaGCCU--GCCC------AGG- -5'
7643 3' -53.5 NC_001973.1 + 61182 0.69 0.911425
Target:  5'- -cGACGcuCCUcgcugaacgcgcGCUCGGGCGGGcgCCg -3'
miRNA:   3'- gaCUGUuuGGAu-----------CGAGCCUGCCCa-GG- -5'
7643 3' -53.5 NC_001973.1 + 151199 0.69 0.906546
Target:  5'- aUGACAucauGCCUcGGCcggCGGugcCGGGUCUg -3'
miRNA:   3'- gACUGUu---UGGA-UCGa--GCCu--GCCCAGG- -5'
7643 3' -53.5 NC_001973.1 + 68993 0.69 0.906546
Target:  5'- -cGGCGAACCcgucgucuGgaCGGACGGG-CCg -3'
miRNA:   3'- gaCUGUUUGGau------CgaGCCUGCCCaGG- -5'
7643 3' -53.5 NC_001973.1 + 38133 0.69 0.906546
Target:  5'- uUGcACGAACgcGGCUUGGAUGGGgcccgCCg -3'
miRNA:   3'- gAC-UGUUUGgaUCGAGCCUGCCCa----GG- -5'
7643 3' -53.5 NC_001973.1 + 146114 0.69 0.900234
Target:  5'- -cGGCGcugAGCC-GGCUCGGgaGCGGG-CCg -3'
miRNA:   3'- gaCUGU---UUGGaUCGAGCC--UGCCCaGG- -5'
7643 3' -53.5 NC_001973.1 + 68628 0.7 0.879905
Target:  5'- gCUGACGcaaugGGCCagAGaCUCGGACGcGGcCCu -3'
miRNA:   3'- -GACUGU-----UUGGa-UC-GAGCCUGC-CCaGG- -5'
7643 3' -53.5 NC_001973.1 + 55895 0.7 0.865232
Target:  5'- -cGGCAGGCUcgGGCUCGGGCucGGGcUCg -3'
miRNA:   3'- gaCUGUUUGGa-UCGAGCCUG--CCC-AGg -5'
7643 3' -53.5 NC_001973.1 + 22772 0.71 0.841649
Target:  5'- -cGACAucGACCUGG-UCGGGCGGcaGUUCa -3'
miRNA:   3'- gaCUGU--UUGGAUCgAGCCUGCC--CAGG- -5'
7643 3' -53.5 NC_001973.1 + 56497 0.71 0.807552
Target:  5'- -cGGC--GCCaAGCUCGGGCGGGg-- -3'
miRNA:   3'- gaCUGuuUGGaUCGAGCCUGCCCagg -5'
7643 3' -53.5 NC_001973.1 + 56470 0.71 0.807552
Target:  5'- -cGGC--GCCaAGCUCGGGCGGGg-- -3'
miRNA:   3'- gaCUGuuUGGaUCGAGCCUGCCCagg -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.