miRNA display CGI


Results 1 - 20 of 20 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
11965 3' -61.4 NC_003278.1 + 13131 0.66 0.321432
Target:  5'- aCGGucgcgucGGCgauGCCUCGgccgucagcccaucGCCUGCCGUUGu -3'
miRNA:   3'- gGCC-------UCGag-CGGAGC--------------UGGACGGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 4762 0.66 0.309941
Target:  5'- gCCGGuGUcggcgaacuugggaUCGaUCUCGACCgagguguagaccuucUGCCGCUGc -3'
miRNA:   3'- -GGCCuCG--------------AGC-GGAGCUGG---------------ACGGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 9215 0.66 0.309186
Target:  5'- aUGGA-CUCGgCgaaGGCCUGCaCGCUGa -3'
miRNA:   3'- gGCCUcGAGCgGag-CUGGACG-GCGAC- -5'
11965 3' -61.4 NC_003278.1 + 22812 0.66 0.301714
Target:  5'- gCCGGuGCUCGCgC-CGgcgcuggcggGCCUGCCgauccugcaGCUGg -3'
miRNA:   3'- -GGCCuCGAGCG-GaGC----------UGGACGG---------CGAC- -5'
11965 3' -61.4 NC_003278.1 + 21575 0.66 0.297299
Target:  5'- cCCGaGGCUcccgcccugcgaucaCGCCaccgacguUCGACCaGCCGCUGc -3'
miRNA:   3'- -GGCcUCGA---------------GCGG--------AGCUGGaCGGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 10342 0.66 0.287191
Target:  5'- gCCGaugcaGAuGCUCGCCaaCGGCgaGCUGCUGg -3'
miRNA:   3'- -GGC-----CU-CGAGCGGa-GCUGgaCGGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 12798 0.66 0.28648
Target:  5'- gCGGAaaucgccGCcCGCCUCGcCCUGgaguccgaaCCGCUGa -3'
miRNA:   3'- gGCCU-------CGaGCGGAGCuGGAC---------GGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 16770 0.67 0.269141
Target:  5'- gCCGGAguccggugaguuuccGCUCGCagaacacCGGCCgGCCGCa- -3'
miRNA:   3'- -GGCCU---------------CGAGCGga-----GCUGGaCGGCGac -5'
11965 3' -61.4 NC_003278.1 + 22956 0.67 0.266447
Target:  5'- gCCGGuGGCggcaagacUGCCagCGGCCUGgCGCUGc -3'
miRNA:   3'- -GGCC-UCGa-------GCGGa-GCUGGACgGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 17176 0.67 0.253302
Target:  5'- gCUGGuGCcCGCCUUGccgauggcaGCCUGCaCGUUGg -3'
miRNA:   3'- -GGCCuCGaGCGGAGC---------UGGACG-GCGAC- -5'
11965 3' -61.4 NC_003278.1 + 32238 0.68 0.23459
Target:  5'- gCCGGAGaagaagagccugcgCGCCgucggcgacauccUCGGCCgcaUGCCGCUGc -3'
miRNA:   3'- -GGCCUCga------------GCGG-------------AGCUGG---ACGGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 28226 0.68 0.221042
Target:  5'- cCCGGGcguaccuggcccauGCccgCgGCUUCGACCUGgCGCUGa -3'
miRNA:   3'- -GGCCU--------------CGa--G-CGGAGCUGGACgGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 28659 0.68 0.217053
Target:  5'- uUCGGcAGCUUGCCgccaCGGgCUGUCGCg- -3'
miRNA:   3'- -GGCC-UCGAGCGGa---GCUgGACGGCGac -5'
11965 3' -61.4 NC_003278.1 + 31882 0.69 0.204916
Target:  5'- aCCGGAugccguguucaucaGCUCGCCcugcaaaggcgccagCGGCCUGCUGUc- -3'
miRNA:   3'- -GGCCU--------------CGAGCGGa--------------GCUGGACGGCGac -5'
11965 3' -61.4 NC_003278.1 + 23491 0.69 0.195427
Target:  5'- gCCGGuGUagUCGCCgccggugucgUCGGCCagGUCGCUGa -3'
miRNA:   3'- -GGCCuCG--AGCGG----------AGCUGGa-CGGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 19177 0.69 0.185336
Target:  5'- aCGGAGUUcCGCCgauggcgaaUGACCUGCaGCUGc -3'
miRNA:   3'- gGCCUCGA-GCGGa--------GCUGGACGgCGAC- -5'
11965 3' -61.4 NC_003278.1 + 20701 0.7 0.171062
Target:  5'- gCGcGAGCUCGCCgcCGACCucagucaccUGCUGCa- -3'
miRNA:   3'- gGC-CUCGAGCGGa-GCUGG---------ACGGCGac -5'
11965 3' -61.4 NC_003278.1 + 22032 0.7 0.1621
Target:  5'- gCUGGcGUgUCGCCacUCGGUCUGCCGCUGg -3'
miRNA:   3'- -GGCCuCG-AGCGG--AGCUGGACGGCGAC- -5'
11965 3' -61.4 NC_003278.1 + 14225 0.71 0.133978
Target:  5'- cCCGGccucGCUCGCCgCGAUcagcgCUGCCGCg- -3'
miRNA:   3'- -GGCCu---CGAGCGGaGCUG-----GACGGCGac -5'
11965 3' -61.4 NC_003278.1 + 8817 1.1 0.000132
Target:  5'- gCCGGAGCUCGCCUCGACCUGCCGCUGg -3'
miRNA:   3'- -GGCCUCGAGCGGAGCUGGACGGCGAC- -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.