miRNA display CGI


Results 1 - 20 of 100 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
11547 5' -54.9 NC_003085.1 + 452 0.7 0.467001
Target:  5'- aCGGCGcGGAGGGCCAGCcGGcGCUGuuGCa -3'
miRNA:   3'- -GUUGC-UCUUCCGGUUGcUC-CGGCu-CG- -5'
11547 5' -54.9 NC_003085.1 + 555 0.68 0.606133
Target:  5'- gGGCGGGguGGCCGuCGAagugcaGGgCGAGCc -3'
miRNA:   3'- gUUGCUCuuCCGGUuGCU------CCgGCUCG- -5'
11547 5' -54.9 NC_003085.1 + 745 0.73 0.329706
Target:  5'- -cGCGGGAcagguGGCCGGCGAcGuCCGGGCg -3'
miRNA:   3'- guUGCUCUu----CCGGUUGCUcC-GGCUCG- -5'
11547 5' -54.9 NC_003085.1 + 818 0.67 0.677091
Target:  5'- gCGACGAacuccggcaaccagcGGAGGCgAcUGAGGCgCGGGUg -3'
miRNA:   3'- -GUUGCU---------------CUUCCGgUuGCUCCG-GCUCG- -5'
11547 5' -54.9 NC_003085.1 + 2349 0.74 0.276619
Target:  5'- gCGACauccGGGAGGCgCAguGCGAGGCCGcGGCg -3'
miRNA:   3'- -GUUGc---UCUUCCG-GU--UGCUCCGGC-UCG- -5'
11547 5' -54.9 NC_003085.1 + 2376 0.72 0.380906
Target:  5'- uGGCGAGGcAGGCCAGCGccgugcuGCCgGAGCc -3'
miRNA:   3'- gUUGCUCU-UCCGGUUGCuc-----CGG-CUCG- -5'
11547 5' -54.9 NC_003085.1 + 2855 0.68 0.573033
Target:  5'- --cCGGGAGGaGCCGAUGAuGCUGaAGCg -3'
miRNA:   3'- guuGCUCUUC-CGGUUGCUcCGGC-UCG- -5'
11547 5' -54.9 NC_003085.1 + 2902 0.66 0.727148
Target:  5'- --uCGGGAAGGaCCucuACGGGGCCccAGUc -3'
miRNA:   3'- guuGCUCUUCC-GGu--UGCUCCGGc-UCG- -5'
11547 5' -54.9 NC_003085.1 + 3376 0.66 0.727148
Target:  5'- cCAAUGAGAccuGGGCUGugGcGaCUGAGCg -3'
miRNA:   3'- -GUUGCUCU---UCCGGUugCuCcGGCUCG- -5'
11547 5' -54.9 NC_003085.1 + 3658 0.66 0.694663
Target:  5'- aGACG-GAGuGGCaCGACGAGGUugaccuCGAGUu -3'
miRNA:   3'- gUUGCuCUU-CCG-GUUGCUCCG------GCUCG- -5'
11547 5' -54.9 NC_003085.1 + 4159 0.67 0.617225
Target:  5'- gCGGCGAGugcGGGCgCuccaccAgGAGGCgGAGCg -3'
miRNA:   3'- -GUUGCUCu--UCCG-Gu-----UgCUCCGgCUCG- -5'
11547 5' -54.9 NC_003085.1 + 4173 0.66 0.683696
Target:  5'- -cGCGAGAcAGGUgu-UGAGGUgGAGCa -3'
miRNA:   3'- guUGCUCU-UCCGguuGCUCCGgCUCG- -5'
11547 5' -54.9 NC_003085.1 + 4220 0.67 0.616115
Target:  5'- gCGGCGGGuuacgcuGAGcGUCAGCcGGGCCGcAGCg -3'
miRNA:   3'- -GUUGCUC-------UUC-CGGUUGcUCCGGC-UCG- -5'
11547 5' -54.9 NC_003085.1 + 4917 0.67 0.643879
Target:  5'- uGACGuGGAGGCCaucgucgaaagagucGuccgGCGGGuGCUGGGCa -3'
miRNA:   3'- gUUGCuCUUCCGG---------------U----UGCUC-CGGCUCG- -5'
11547 5' -54.9 NC_003085.1 + 5147 0.7 0.456931
Target:  5'- ---aGAGGAGGCCGACGcgaAGGCagcGGCc -3'
miRNA:   3'- guugCUCUUCCGGUUGC---UCCGgc-UCG- -5'
11547 5' -54.9 NC_003085.1 + 5710 0.7 0.44599
Target:  5'- uGGCGGGAcucGGCCGucuacucGCG-GGCCGAGg -3'
miRNA:   3'- gUUGCUCUu--CCGGU-------UGCuCCGGCUCg -5'
11547 5' -54.9 NC_003085.1 + 5798 0.69 0.540374
Target:  5'- gCGACGAccucGGCCcGCGAguagacGGCCGAGUc -3'
miRNA:   3'- -GUUGCUcuu-CCGGuUGCU------CCGGCUCG- -5'
11547 5' -54.9 NC_003085.1 + 6847 0.68 0.577425
Target:  5'- gUAGCGGaAGGGCUcucgccguccgccacGGCGcggcAGGCCGGGCa -3'
miRNA:   3'- -GUUGCUcUUCCGG---------------UUGC----UCCGGCUCG- -5'
11547 5' -54.9 NC_003085.1 + 7163 0.67 0.617225
Target:  5'- cCGGCGAGGAuGGCgCucaccAUGGGGCCacugaaGAGCa -3'
miRNA:   3'- -GUUGCUCUU-CCG-Gu----UGCUCCGG------CUCG- -5'
11547 5' -54.9 NC_003085.1 + 7303 0.68 0.562086
Target:  5'- uCGACGGGAAgucuccgacGGCCAucGCGGaggcGGCUGAGg -3'
miRNA:   3'- -GUUGCUCUU---------CCGGU--UGCU----CCGGCUCg -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.