miRNA display CGI


Results 1 - 13 of 13 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
12336 3' -52.5 NC_003324.1 + 48977 0.66 0.869078
Target:  5'- gGCGgGUGg--CGGAGuCCUGgaugcGGGCg -3'
miRNA:   3'- aCGCgCAUagaGCCUCuGGAUa----CUCG- -5'
12336 3' -52.5 NC_003324.1 + 17822 0.66 0.866639
Target:  5'- gGCGCGca-UUCGGGGugucgcccuugaacGCCUgGUGGGCg -3'
miRNA:   3'- aCGCGCauaGAGCCUC--------------UGGA-UACUCG- -5'
12336 3' -52.5 NC_003324.1 + 32199 0.66 0.860859
Target:  5'- gUGCGCGgcAUCUUcGAGGCCcaaucGGGCg -3'
miRNA:   3'- -ACGCGCa-UAGAGcCUCUGGaua--CUCG- -5'
12336 3' -52.5 NC_003324.1 + 50460 0.66 0.860859
Target:  5'- cUGCGCG-AUC-CGGAGGgCgaaGAGUg -3'
miRNA:   3'- -ACGCGCaUAGaGCCUCUgGauaCUCG- -5'
12336 3' -52.5 NC_003324.1 + 14244 0.66 0.85581
Target:  5'- aGCGCGUccAgcucggucugucgcuUCUCGGAGACCgcaaacGCc -3'
miRNA:   3'- aCGCGCA--U---------------AGAGCCUCUGGauacu-CG- -5'
12336 3' -52.5 NC_003324.1 + 41685 0.66 0.852395
Target:  5'- gGCGUGgcUCUCGcagaGGGGCUUucccGAGCg -3'
miRNA:   3'- aCGCGCauAGAGC----CUCUGGAua--CUCG- -5'
12336 3' -52.5 NC_003324.1 + 53732 0.66 0.843691
Target:  5'- aGCGCGUAcaggaacCGGAGGCCgcucAUG-GCu -3'
miRNA:   3'- aCGCGCAUaga----GCCUCUGGa---UACuCG- -5'
12336 3' -52.5 NC_003324.1 + 40054 0.67 0.835661
Target:  5'- gGCGCGacggaCUUGGAGAUUgcgcaggcuuucgagGUGAGCa -3'
miRNA:   3'- aCGCGCaua--GAGCCUCUGGa--------------UACUCG- -5'
12336 3' -52.5 NC_003324.1 + 22037 0.67 0.816242
Target:  5'- uUGCGCGcGUC-CGacauGACCU-UGAGCa -3'
miRNA:   3'- -ACGCGCaUAGaGCcu--CUGGAuACUCG- -5'
12336 3' -52.5 NC_003324.1 + 26321 0.67 0.804743
Target:  5'- gGCGUGgcagaugGUCagGGAGACCUAcuugcugcugccGAGCg -3'
miRNA:   3'- aCGCGCa------UAGagCCUCUGGAUa-----------CUCG- -5'
12336 3' -52.5 NC_003324.1 + 38000 0.69 0.677185
Target:  5'- aGCGCGUauggacuuuucgccGUCUCGGAGuuACCgcUAUuGGCa -3'
miRNA:   3'- aCGCGCA--------------UAGAGCCUC--UGG--AUAcUCG- -5'
12336 3' -52.5 NC_003324.1 + 45638 0.7 0.669407
Target:  5'- gGUuCGUcGUCUUGGAGGCCgacaaacAUGAGCc -3'
miRNA:   3'- aCGcGCA-UAGAGCCUCUGGa------UACUCG- -5'
12336 3' -52.5 NC_003324.1 + 17317 1.13 0.00108
Target:  5'- cUGCGCGUAUCUCGGAGACCUAUGAGCg -3'
miRNA:   3'- -ACGCGCAUAGAGCCUCUGGAUACUCG- -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.