miRNA display CGI


Results 1 - 20 of 34 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
16308 5' -65.6 NC_004084.1 + 690 0.69 0.185216
Target:  5'- uCGACGUCCUCGAGCGGuGCa--CGCa -3'
miRNA:   3'- uGCUGCGGGGGCUCGCC-CGccaGCGc -5'
16308 5' -65.6 NC_004084.1 + 940 0.7 0.144
Target:  5'- gUGACGCUCCCGGaggaggucGCGGGCcaucUCGCGg -3'
miRNA:   3'- uGCUGCGGGGGCU--------CGCCCGcc--AGCGC- -5'
16308 5' -65.6 NC_004084.1 + 1308 0.66 0.266344
Target:  5'- -gGACGUCCUCGAcuggauCGaGGCGGUCuGCGu -3'
miRNA:   3'- ugCUGCGGGGGCUc-----GC-CCGCCAG-CGC- -5'
16308 5' -65.6 NC_004084.1 + 1693 0.67 0.248087
Target:  5'- gAUGAUGUCCggCCGAGUGugcuucaGUGGUCGCGg -3'
miRNA:   3'- -UGCUGCGGG--GGCUCGCc------CGCCAGCGC- -5'
16308 5' -65.6 NC_004084.1 + 4297 0.69 0.189867
Target:  5'- cACGACGuCCCgCCGGugaucGCGGGC-GUCGuCGa -3'
miRNA:   3'- -UGCUGC-GGG-GGCU-----CGCCCGcCAGC-GC- -5'
16308 5' -65.6 NC_004084.1 + 5340 0.69 0.185216
Target:  5'- --cACGUCgCCGAGCGGGCGG-CGa- -3'
miRNA:   3'- ugcUGCGGgGGCUCGCCCGCCaGCgc -5'
16308 5' -65.6 NC_004084.1 + 8182 0.72 0.111327
Target:  5'- aGCGACGCCUCaGAGUGGG-GuUCGCGg -3'
miRNA:   3'- -UGCUGCGGGGgCUCGCCCgCcAGCGC- -5'
16308 5' -65.6 NC_004084.1 + 11411 0.69 0.171862
Target:  5'- cGCGACGUCCUCGAGgaacucGCGGUCGUc -3'
miRNA:   3'- -UGCUGCGGGGGCUCgcc---CGCCAGCGc -5'
16308 5' -65.6 NC_004084.1 + 13753 0.66 0.278461
Target:  5'- uCGGCucGCCCUCGAGgucgcgcUGGGCGGgcucggagaUCGCGu -3'
miRNA:   3'- uGCUG--CGGGGGCUC-------GCCCGCC---------AGCGC- -5'
16308 5' -65.6 NC_004084.1 + 17272 0.75 0.05909
Target:  5'- gGCGAUGCCCUCG-GUGgaGGCGGUgGCGg -3'
miRNA:   3'- -UGCUGCGGGGGCuCGC--CCGCCAgCGC- -5'
16308 5' -65.6 NC_004084.1 + 21460 0.67 0.242235
Target:  5'- gACGAggaaccggcuCGCCCUCGAGgGcGGCGaUCGCc -3'
miRNA:   3'- -UGCU----------GCGGGGGCUCgC-CCGCcAGCGc -5'
16308 5' -65.6 NC_004084.1 + 26147 0.68 0.219971
Target:  5'- aGC-ACGCCCagguUGGGCGGGCaGUCGaCGa -3'
miRNA:   3'- -UGcUGCGGGg---GCUCGCCCGcCAGC-GC- -5'
16308 5' -65.6 NC_004084.1 + 26880 0.66 0.292358
Target:  5'- cGCGAUGUCCuCCGAgGCGaucGCGGcauccaUCGCGa -3'
miRNA:   3'- -UGCUGCGGG-GGCU-CGCc--CGCC------AGCGC- -5'
16308 5' -65.6 NC_004084.1 + 26928 0.69 0.163443
Target:  5'- gGCGACuGCCUCCaucGCGcGGCGGaCGCGc -3'
miRNA:   3'- -UGCUG-CGGGGGcu-CGC-CCGCCaGCGC- -5'
16308 5' -65.6 NC_004084.1 + 29016 0.66 0.291684
Target:  5'- cGCGACGCCCCagGAGUGGcCGcccgaccGUUGCu -3'
miRNA:   3'- -UGCUGCGGGGg-CUCGCCcGC-------CAGCGc -5'
16308 5' -65.6 NC_004084.1 + 29348 1.08 0.000172
Target:  5'- gACGACGCCCCCGAGCGGGCGGUCGCGg -3'
miRNA:   3'- -UGCUGCGGGGGCUCGCCCGCCAGCGC- -5'
16308 5' -65.6 NC_004084.1 + 35048 0.67 0.230877
Target:  5'- gAUGAuCGCCUgauaCCG-GCaGGCGGUCGCc -3'
miRNA:   3'- -UGCU-GCGGG----GGCuCGcCCGCCAGCGc -5'
16308 5' -65.6 NC_004084.1 + 35945 0.66 0.299165
Target:  5'- cCGGCGUCgCCgGGGUcGGCGGcCGUGa -3'
miRNA:   3'- uGCUGCGG-GGgCUCGcCCGCCaGCGC- -5'
16308 5' -65.6 NC_004084.1 + 35970 0.66 0.299165
Target:  5'- cGCGAgCGCCCCCGAagacGGCGGUauugGCc -3'
miRNA:   3'- -UGCU-GCGGGGGCUcgc-CCGCCAg---CGc -5'
16308 5' -65.6 NC_004084.1 + 36254 0.72 0.114253
Target:  5'- uCGACGUCCUCGAGUGcgccgaGGCGcUCGCGg -3'
miRNA:   3'- uGCUGCGGGGGCUCGC------CCGCcAGCGC- -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.