miRNA display CGI


Results 1 - 20 of 28 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
17216 3' -62.2 NC_004333.2 + 25517 0.66 0.320673
Target:  5'- -----cGGCCGAGCGCgucuuGGUaCGCGCc -3'
miRNA:   3'- uuggaaCCGGCUCGCG-----CCAcGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 38972 0.66 0.312281
Target:  5'- uGGCCgu-GCCGAucagcgcgaagcgGCGCGG-GUGCGCg -3'
miRNA:   3'- -UUGGaacCGGCU-------------CGCGCCaCGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 22397 0.66 0.305541
Target:  5'- uGCCa-GGUCGAGgcuuCGCGGcgcaUGCGCGCa -3'
miRNA:   3'- uUGGaaCCGGCUC----GCGCC----ACGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 23585 0.66 0.298182
Target:  5'- aAGCCgccGCCGAGCaucauccaccaaGCGaUGCGCGCg -3'
miRNA:   3'- -UUGGaacCGGCUCG------------CGCcACGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 5538 0.66 0.298182
Target:  5'- uGCCgUGGCCG-GCGaCGGcuugGCGCGa- -3'
miRNA:   3'- uUGGaACCGGCuCGC-GCCa---CGCGCga -5'
17216 3' -62.2 NC_004333.2 + 20745 0.66 0.298182
Target:  5'- uGCCggacaucGCCGA-CGCGGcUGCGCGCc -3'
miRNA:   3'- uUGGaac----CGGCUcGCGCC-ACGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 8975 0.66 0.283879
Target:  5'- gGAUCgugGGCCGuGCGCGGcgGCGaccgaCGCg -3'
miRNA:   3'- -UUGGaa-CCGGCuCGCGCCa-CGC-----GCGa -5'
17216 3' -62.2 NC_004333.2 + 20953 0.67 0.263451
Target:  5'- cGCCacgGGCCGGacgcaaacgcGCGCGGcGCGgGCg -3'
miRNA:   3'- uUGGaa-CCGGCU----------CGCGCCaCGCgCGa -5'
17216 3' -62.2 NC_004333.2 + 10273 0.67 0.256911
Target:  5'- uGCCgacGGCCGcauGCGC-GUGCGCGaCUg -3'
miRNA:   3'- uUGGaa-CCGGCu--CGCGcCACGCGC-GA- -5'
17216 3' -62.2 NC_004333.2 + 6729 0.67 0.250506
Target:  5'- cGCCU--GCuCGAGCGCGccgaGCGCGCUg -3'
miRNA:   3'- uUGGAacCG-GCUCGCGCca--CGCGCGA- -5'
17216 3' -62.2 NC_004333.2 + 44413 0.67 0.244232
Target:  5'- cGGCCU--GCCGGGCucgcugGCuGGUGCGUGCg -3'
miRNA:   3'- -UUGGAacCGGCUCG------CG-CCACGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 37749 0.68 0.23809
Target:  5'- cGCCgggccGGCCGAcgaGCGGgucggGCGCGCg -3'
miRNA:   3'- uUGGaa---CCGGCUcg-CGCCa----CGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 29959 0.68 0.220436
Target:  5'- aAGCgCgu-GCCGAGCGCGGc-CGCGCUg -3'
miRNA:   3'- -UUG-GaacCGGCUCGCGCCacGCGCGA- -5'
17216 3' -62.2 NC_004333.2 + 45137 0.68 0.214804
Target:  5'- -uUCUUGcCCGGGCGCGGccGCGCGgUg -3'
miRNA:   3'- uuGGAACcGGCUCGCGCCa-CGCGCgA- -5'
17216 3' -62.2 NC_004333.2 + 382 0.68 0.214804
Target:  5'- aGGCCgacagaguuGCCGAGCGCGuagaGCGCGCg -3'
miRNA:   3'- -UUGGaac------CGGCUCGCGCca--CGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 2898 0.69 0.188469
Target:  5'- uGAUgUUGGCCGAGaCGUGcUGCGCaGCg -3'
miRNA:   3'- -UUGgAACCGGCUC-GCGCcACGCG-CGa -5'
17216 3' -62.2 NC_004333.2 + 46187 0.69 0.188469
Target:  5'- cGACCgagGGCUGGGCGCGucuCGCGCc -3'
miRNA:   3'- -UUGGaa-CCGGCUCGCGCcacGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 14682 0.69 0.183555
Target:  5'- cAGCUUgucGGCCGAGUGCaGGUGUG-GCa -3'
miRNA:   3'- -UUGGAa--CCGGCUCGCG-CCACGCgCGa -5'
17216 3' -62.2 NC_004333.2 + 28961 0.69 0.183555
Target:  5'- cGGCCUgcGCCGAGCGCGau-CGCGCg -3'
miRNA:   3'- -UUGGAacCGGCUCGCGCcacGCGCGa -5'
17216 3' -62.2 NC_004333.2 + 47007 0.69 0.174067
Target:  5'- cGCCUUGGCUGcGCGCGaGgcuucGCgGCGCUc -3'
miRNA:   3'- uUGGAACCGGCuCGCGC-Ca----CG-CGCGA- -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.