miRNA display CGI


Results 1 - 20 of 44 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
19104 3' -51.7 NC_004684.1 + 636 0.67 0.879104
Target:  5'- cGACGAGCAcggcGACCC-CAAGgaCAccGACGc -3'
miRNA:   3'- -CUGUUCGU----CUGGGcGUUCgaGU--UUGC- -5'
19104 3' -51.7 NC_004684.1 + 2218 0.69 0.758267
Target:  5'- cGGCGGGaCGGACCCGCcagggaAGGCagAAAUGa -3'
miRNA:   3'- -CUGUUC-GUCUGGGCG------UUCGagUUUGC- -5'
19104 3' -51.7 NC_004684.1 + 2407 0.66 0.908155
Target:  5'- uGGCGAgccGCAGACCCGCGucGCggUCAucGACc -3'
miRNA:   3'- -CUGUU---CGUCUGGGCGUu-CG--AGU--UUGc -5'
19104 3' -51.7 NC_004684.1 + 3860 0.69 0.768691
Target:  5'- -cCGAGCGccacGCCCGCGAGCUgcGACGc -3'
miRNA:   3'- cuGUUCGUc---UGGGCGUUCGAguUUGC- -5'
19104 3' -51.7 NC_004684.1 + 4825 0.72 0.614901
Target:  5'- gGACAAGCucGGCCUG-AAGCUgGAGCGu -3'
miRNA:   3'- -CUGUUCGu-CUGGGCgUUCGAgUUUGC- -5'
19104 3' -51.7 NC_004684.1 + 5532 0.73 0.537181
Target:  5'- cGACGAGUGGuCCCGCcAGGCUguGACc -3'
miRNA:   3'- -CUGUUCGUCuGGGCG-UUCGAguUUGc -5'
19104 3' -51.7 NC_004684.1 + 5983 0.67 0.879104
Target:  5'- -cCGAGCaAGuCCCGgccuGGCUCAGGCGc -3'
miRNA:   3'- cuGUUCG-UCuGGGCgu--UCGAGUUUGC- -5'
19104 3' -51.7 NC_004684.1 + 8122 1.11 0.002044
Target:  5'- cGACAAGCAGACCCGCAAGCUCAAACGg -3'
miRNA:   3'- -CUGUUCGUCUGGGCGUUCGAGUUUGC- -5'
19104 3' -51.7 NC_004684.1 + 8907 0.66 0.908155
Target:  5'- cGGCAagaagGGCGGGCgCgGCAAGUUCGcGCu -3'
miRNA:   3'- -CUGU-----UCGUCUG-GgCGUUCGAGUuUGc -5'
19104 3' -51.7 NC_004684.1 + 13773 0.67 0.854513
Target:  5'- uGCGGGUguccGGGCCgCGCGuGCUCAAgaGCGg -3'
miRNA:   3'- cUGUUCG----UCUGG-GCGUuCGAGUU--UGC- -5'
19104 3' -51.7 NC_004684.1 + 13981 0.66 0.901309
Target:  5'- cGCAGGCAGACCUggaGCAGuuGC-CcGACGg -3'
miRNA:   3'- cUGUUCGUCUGGG---CGUU--CGaGuUUGC- -5'
19104 3' -51.7 NC_004684.1 + 15571 0.7 0.726235
Target:  5'- cGAgAAGCuGACCCGCGAgaagggggcgcGCUCGGuGCGc -3'
miRNA:   3'- -CUgUUCGuCUGGGCGUU-----------CGAGUU-UGC- -5'
19104 3' -51.7 NC_004684.1 + 15617 0.66 0.901309
Target:  5'- gGACGAGUA---CCGCGAGCgCGAGCa -3'
miRNA:   3'- -CUGUUCGUcugGGCGUUCGaGUUUGc -5'
19104 3' -51.7 NC_004684.1 + 16067 0.76 0.385564
Target:  5'- aGCAAGCGuGGCCCGCcgguGAGC-CGAACGa -3'
miRNA:   3'- cUGUUCGU-CUGGGCG----UUCGaGUUUGC- -5'
19104 3' -51.7 NC_004684.1 + 16962 0.69 0.793086
Target:  5'- uGCAAGCGGGCCUGCAccugcuGCUgguguaccccaacagCAAGCa -3'
miRNA:   3'- cUGUUCGUCUGGGCGUu-----CGA---------------GUUUGc -5'
19104 3' -51.7 NC_004684.1 + 18478 0.69 0.747708
Target:  5'- gGGCcuGCGGACCCGCAcguGCU-GAACu -3'
miRNA:   3'- -CUGuuCGUCUGGGCGUu--CGAgUUUGc -5'
19104 3' -51.7 NC_004684.1 + 19791 0.68 0.827738
Target:  5'- cGACAagauGGCGGGCCUGCuggccaagGAGUUCGucAGCGc -3'
miRNA:   3'- -CUGU----UCGUCUGGGCG--------UUCGAGU--UUGC- -5'
19104 3' -51.7 NC_004684.1 + 23943 0.67 0.854513
Target:  5'- aGCugcGCGGACCCGCcuGC-CGAGCc -3'
miRNA:   3'- cUGuu-CGUCUGGGCGuuCGaGUUUGc -5'
19104 3' -51.7 NC_004684.1 + 26476 0.66 0.901309
Target:  5'- cGACA-GCGuGCCCGCcauGCUCAugccuGGCGa -3'
miRNA:   3'- -CUGUuCGUcUGGGCGuu-CGAGU-----UUGC- -5'
19104 3' -51.7 NC_004684.1 + 28148 0.67 0.869544
Target:  5'- aGCAAGUccuuGGACCCGUcGGCgcgcaagaucagCGAGCGg -3'
miRNA:   3'- cUGUUCG----UCUGGGCGuUCGa-----------GUUUGC- -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.