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
18992 3' -60.8 NC_004684.1 + 41424 0.66 0.503082
Target:  5'- uGGCCCG--GCCGucGGCGGUCGCg---- -3'
miRNA:   3'- -CCGGGCguCGGU--CUGCCAGCGagaga -5'
18992 3' -60.8 NC_004684.1 + 50324 0.66 0.503082
Target:  5'- cGGUgCGCccGGCCAGGCGGgcgGC-CUCc -3'
miRNA:   3'- -CCGgGCG--UCGGUCUGCCag-CGaGAGa -5'
18992 3' -60.8 NC_004684.1 + 40437 0.66 0.493237
Target:  5'- cGGCCUuggucaGCGGugcCCAGGCGGcCGCcugCUCg -3'
miRNA:   3'- -CCGGG------CGUC---GGUCUGCCaGCGa--GAGa -5'
18992 3' -60.8 NC_004684.1 + 42272 0.66 0.464258
Target:  5'- cGGCCCacuGCucaccGCgCAGuGCGG-CGCUCUCg -3'
miRNA:   3'- -CCGGG---CGu----CG-GUC-UGCCaGCGAGAGa -5'
18992 3' -60.8 NC_004684.1 + 6077 0.67 0.44544
Target:  5'- cGCCUGagccaGGCCGGGacuucgcucggcCGGUCGCUCa-- -3'
miRNA:   3'- cCGGGCg----UCGGUCU------------GCCAGCGAGaga -5'
18992 3' -60.8 NC_004684.1 + 49200 0.67 0.436192
Target:  5'- cGGCCUGCucggucGGCCAGuCGGUCGgUg--- -3'
miRNA:   3'- -CCGGGCG------UCGGUCuGCCAGCgAgaga -5'
18992 3' -60.8 NC_004684.1 + 23466 0.67 0.427056
Target:  5'- uGCCCGaCAGCguGACGGcgguggugacCGCUUUCc -3'
miRNA:   3'- cCGGGC-GUCGguCUGCCa---------GCGAGAGa -5'
18992 3' -60.8 NC_004684.1 + 1228 0.67 0.400345
Target:  5'- cGGCCUcgGCGGCCuGGuCGGUCGCcCg-- -3'
miRNA:   3'- -CCGGG--CGUCGGuCU-GCCAGCGaGaga -5'
18992 3' -60.8 NC_004684.1 + 55639 0.68 0.39168
Target:  5'- gGGCCacgGCGGCCAG-CGG-CGCgagUUCg -3'
miRNA:   3'- -CCGGg--CGUCGGUCuGCCaGCGa--GAGa -5'
18992 3' -60.8 NC_004684.1 + 23965 0.68 0.39168
Target:  5'- aGCCUGUAcaacCCGGACGGcUCGCUCa-- -3'
miRNA:   3'- cCGGGCGUc---GGUCUGCC-AGCGAGaga -5'
18992 3' -60.8 NC_004684.1 + 12148 0.68 0.374723
Target:  5'- cGCUCgGCGGCCAGGCGaGcCGC-CUCc -3'
miRNA:   3'- cCGGG-CGUCGGUCUGC-CaGCGaGAGa -5'
18992 3' -60.8 NC_004684.1 + 36269 0.68 0.358269
Target:  5'- uGUCCgGCGGCCuggccaagaacgAGGCGGU-GCUCUCg -3'
miRNA:   3'- cCGGG-CGUCGG------------UCUGCCAgCGAGAGa -5'
18992 3' -60.8 NC_004684.1 + 58408 0.68 0.35746
Target:  5'- uGGCCCgGCcGCCGGAaccccgcCGGUUGC-CUCc -3'
miRNA:   3'- -CCGGG-CGuCGGUCU-------GCCAGCGaGAGa -5'
18992 3' -60.8 NC_004684.1 + 57208 0.7 0.283763
Target:  5'- cGCCaguGCuGCCAG-CGGUCGCUC-Ca -3'
miRNA:   3'- cCGGg--CGuCGGUCuGCCAGCGAGaGa -5'
18992 3' -60.8 NC_004684.1 + 22357 0.7 0.277026
Target:  5'- uGG-CCGCcGCCAGGCGGUCccauGCUCg-- -3'
miRNA:   3'- -CCgGGCGuCGGUCUGCCAG----CGAGaga -5'
18992 3' -60.8 NC_004684.1 + 55277 0.7 0.277026
Target:  5'- aGCgCCGCcGCCAG-CGGUgCGUUCUCc -3'
miRNA:   3'- cCG-GGCGuCGGUCuGCCA-GCGAGAGa -5'
18992 3' -60.8 NC_004684.1 + 16695 0.7 0.266514
Target:  5'- uGGCCUGCcGCCuGGCGuGguguacggcaucuucUCGCUCUCg -3'
miRNA:   3'- -CCGGGCGuCGGuCUGC-C---------------AGCGAGAGa -5'
18992 3' -60.8 NC_004684.1 + 21714 0.72 0.20591
Target:  5'- cGGUUgGCAGgcgcaccuCCAGGCGGUCGCcCUCg -3'
miRNA:   3'- -CCGGgCGUC--------GGUCUGCCAGCGaGAGa -5'
18992 3' -60.8 NC_004684.1 + 6010 0.72 0.200757
Target:  5'- uGGCCagCGCGGCCAGcCGGUCGUgcgcgaUCa -3'
miRNA:   3'- -CCGG--GCGUCGGUCuGCCAGCGag----AGa -5'
18992 3' -60.8 NC_004684.1 + 45247 0.75 0.129036
Target:  5'- aGGCCCgGCAGCCAGcGCuGGUCGCggccCUUg -3'
miRNA:   3'- -CCGGG-CGUCGGUC-UG-CCAGCGa---GAGa -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.