miRNA display CGI


Results 1 - 20 of 29 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
22308 3' -62.2 NC_005045.1 + 2825 0.67 0.264896
Target:  5'- gAUGaGUCCAGCGAuGGGUG-CaGCCUUGGc -3'
miRNA:   3'- -UGC-CGGGUUGCU-CCCGCaG-CGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 5129 0.71 0.138792
Target:  5'- -gGGCCUAuuACGugcGGGCcuuacUCGCCCUGGg -3'
miRNA:   3'- ugCCGGGU--UGCu--CCCGc----AGCGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 8799 0.75 0.069979
Target:  5'- gGCGGCCCuggguAUGAccguGGGUGagauucUCGCCCUGGa -3'
miRNA:   3'- -UGCCGGGu----UGCU----CCCGC------AGCGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 9461 1.08 0.0002
Target:  5'- cACGGCCCAACGAGGGCGUCGCCCUGGc -3'
miRNA:   3'- -UGCCGGGUUGCUCCCGCAGCGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 9813 0.7 0.171622
Target:  5'- cUGGCCCGAcccCGAaGGCGgccCGCgCCUGGg -3'
miRNA:   3'- uGCCGGGUU---GCUcCCGCa--GCG-GGACC- -5'
22308 3' -62.2 NC_005045.1 + 12506 0.75 0.073985
Target:  5'- -aGaGCCU--UGAGGGCGUCGCCgCUGGu -3'
miRNA:   3'- ugC-CGGGuuGCUCCCGCAGCGG-GACC- -5'
22308 3' -62.2 NC_005045.1 + 16700 0.67 0.264896
Target:  5'- uGCGGCCCAGCcAGugcaGCG-CGCCCUu- -3'
miRNA:   3'- -UGCCGGGUUGcUCc---CGCaGCGGGAcc -5'
22308 3' -62.2 NC_005045.1 + 16750 0.71 0.142557
Target:  5'- --cGCCUAuCGAGGGCugggugugGUCGCUCUGGa -3'
miRNA:   3'- ugcCGGGUuGCUCCCG--------CAGCGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 18692 0.66 0.344865
Target:  5'- gGCGGCCCuggccggagcguGAUGcuGGCGccgccgCGaCCCUGGa -3'
miRNA:   3'- -UGCCGGG------------UUGCucCCGCa-----GC-GGGACC- -5'
22308 3' -62.2 NC_005045.1 + 19475 0.68 0.25208
Target:  5'- -gGGCCUucGGCGAGGGCG-CGCU--GGa -3'
miRNA:   3'- ugCCGGG--UUGCUCCCGCaGCGGgaCC- -5'
22308 3' -62.2 NC_005045.1 + 19816 0.71 0.138792
Target:  5'- uACGGCaCC-ACGuucaAGGGCGUCGUggaccacugCCUGGa -3'
miRNA:   3'- -UGCCG-GGuUGC----UCCCGCAGCG---------GGACC- -5'
22308 3' -62.2 NC_005045.1 + 24974 0.78 0.044661
Target:  5'- gACGGCCCAGCGGguGGGCugcgaUUGCCUUGGu -3'
miRNA:   3'- -UGCCGGGUUGCU--CCCGc----AGCGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 25496 0.66 0.344865
Target:  5'- uGCGGCCCGugGGGucaGGUGUCaGCUUg-- -3'
miRNA:   3'- -UGCCGGGUugCUC---CCGCAG-CGGGacc -5'
22308 3' -62.2 NC_005045.1 + 27350 0.7 0.162816
Target:  5'- uGCGGCCagucACGGcaGGUGcCGCCCUGGu -3'
miRNA:   3'- -UGCCGGgu--UGCUc-CCGCaGCGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 28590 0.67 0.292103
Target:  5'- gUGGCCCuggauaucgAGCGGGaggucGGCGagGCCCUGa -3'
miRNA:   3'- uGCCGGG---------UUGCUC-----CCGCagCGGGACc -5'
22308 3' -62.2 NC_005045.1 + 28806 0.67 0.2715
Target:  5'- cCGGCcaCCAGCGGGGacCGUUGCCCcgccgUGGu -3'
miRNA:   3'- uGCCG--GGUUGCUCCc-GCAGCGGG-----ACC- -5'
22308 3' -62.2 NC_005045.1 + 29907 0.7 0.185629
Target:  5'- gGCGGCCCuggaAGCGGGGGacaucaaCGCCCUa- -3'
miRNA:   3'- -UGCCGGG----UUGCUCCCgca----GCGGGAcc -5'
22308 3' -62.2 NC_005045.1 + 30238 0.69 0.195519
Target:  5'- -aGGCCgAGC-AGGGCGcCGUggCCUGGg -3'
miRNA:   3'- ugCCGGgUUGcUCCCGCaGCG--GGACC- -5'
22308 3' -62.2 NC_005045.1 + 30846 0.67 0.269505
Target:  5'- aGCGGCagccuCCucgccgucgaguacGACGAGaacGGUGUgGCCCUGGa -3'
miRNA:   3'- -UGCCG-----GG--------------UUGCUC---CCGCAgCGGGACC- -5'
22308 3' -62.2 NC_005045.1 + 31309 0.67 0.299238
Target:  5'- uAUGGCCUuccagaugGGCGaAGGGCGU-GCCC-GGc -3'
miRNA:   3'- -UGCCGGG--------UUGC-UCCCGCAgCGGGaCC- -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.