miRNA display CGI


Results 1 - 20 of 55 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
19282 3' -62 NC_004685.1 + 4451 0.68 0.33594
Target:  5'- gUUCggGcGCCCCGGCgagUGCGUcgaugagacgAGCGCg -3'
miRNA:   3'- -AGGaaC-CGGGGCCGga-ACGCG----------UCGCG- -5'
19282 3' -62 NC_004685.1 + 3667 0.69 0.271774
Target:  5'- gCC-UGGCCCgcuucucggCGGCUUUggugugggugGCGCAGCGUu -3'
miRNA:   3'- aGGaACCGGG---------GCCGGAA----------CGCGUCGCG- -5'
19282 3' -62 NC_004685.1 + 68396 0.69 0.292002
Target:  5'- gUCCgagugUGcGCCCCGGguCCgaUGCGCcacGCGCg -3'
miRNA:   3'- -AGGa----AC-CGGGGCC--GGa-ACGCGu--CGCG- -5'
19282 3' -62 NC_004685.1 + 38238 0.68 0.313389
Target:  5'- gUCCUcGGCCCCGGCaccaucgGCGaGGC-Ca -3'
miRNA:   3'- -AGGAaCCGGGGCCGgaa----CGCgUCGcG- -5'
19282 3' -62 NC_004685.1 + 44311 0.68 0.313389
Target:  5'- ---aUGGCCCCaGCUggGCG-GGCGCa -3'
miRNA:   3'- aggaACCGGGGcCGGaaCGCgUCGCG- -5'
19282 3' -62 NC_004685.1 + 49705 0.68 0.328294
Target:  5'- aCCaccgGGCgCgGGCCUUGUcCAGCGUc -3'
miRNA:   3'- aGGaa--CCGgGgCCGGAACGcGUCGCG- -5'
19282 3' -62 NC_004685.1 + 49994 0.68 0.328294
Target:  5'- gCCUcGGCCCgccaCGGCCgcucGUGCAGC-Ca -3'
miRNA:   3'- aGGAaCCGGG----GCCGGaa--CGCGUCGcG- -5'
19282 3' -62 NC_004685.1 + 61732 0.68 0.33594
Target:  5'- cUCCUcgcagaUGGCCuuGGCUcgGUcCAGCGUc -3'
miRNA:   3'- -AGGA------ACCGGggCCGGaaCGcGUCGCG- -5'
19282 3' -62 NC_004685.1 + 2895 0.68 0.33594
Target:  5'- gCCaggaucgGGCaCCCGGCCccagUGC-CGGUGCg -3'
miRNA:   3'- aGGaa-----CCG-GGGCCGGa---ACGcGUCGCG- -5'
19282 3' -62 NC_004685.1 + 2863 0.69 0.271774
Target:  5'- -gCUUGGgCUugCGGCCggUGCGCAcgGCGCu -3'
miRNA:   3'- agGAACCgGG--GCCGGa-ACGCGU--CGCG- -5'
19282 3' -62 NC_004685.1 + 33169 0.7 0.240585
Target:  5'- aCCggUGGCaCCGGCCggugguggGCGcCGGUGCg -3'
miRNA:   3'- aGGa-ACCGgGGCCGGaa------CGC-GUCGCG- -5'
19282 3' -62 NC_004685.1 + 21282 0.7 0.240585
Target:  5'- aCCgaGGCCCUGGUgg-GCGCGGCu- -3'
miRNA:   3'- aGGaaCCGGGGCCGgaaCGCGUCGcg -5'
19282 3' -62 NC_004685.1 + 55260 0.76 0.089402
Target:  5'- cUCCUUcGCCUCGGCCUcggcGCGCAGCu- -3'
miRNA:   3'- -AGGAAcCGGGGCCGGAa---CGCGUCGcg -5'
19282 3' -62 NC_004685.1 + 57073 0.76 0.091853
Target:  5'- uUCCUg---CCCGGCCUUGCGCaccucggcGGCGCg -3'
miRNA:   3'- -AGGAaccgGGGCCGGAACGCG--------UCGCG- -5'
19282 3' -62 NC_004685.1 + 49220 0.75 0.096946
Target:  5'- gUCCgcgUGGCCaacgCGGCCgaaCGCAGCGCc -3'
miRNA:   3'- -AGGa--ACCGGg---GCCGGaacGCGUCGCG- -5'
19282 3' -62 NC_004685.1 + 45808 0.75 0.102305
Target:  5'- ---cUGGCCCUGGaggugGCGCAGCGCa -3'
miRNA:   3'- aggaACCGGGGCCggaa-CGCGUCGCG- -5'
19282 3' -62 NC_004685.1 + 1152 0.75 0.11087
Target:  5'- aCCagggUGGCCCuCGGCCaucGUGCAGCGg -3'
miRNA:   3'- aGGa---ACCGGG-GCCGGaa-CGCGUCGCg -5'
19282 3' -62 NC_004685.1 + 68537 0.73 0.140745
Target:  5'- gCUgUGGCCCCGGCCaguccgaUGCG-GGCGCc -3'
miRNA:   3'- aGGaACCGGGGCCGGa------ACGCgUCGCG- -5'
19282 3' -62 NC_004685.1 + 42811 0.72 0.177829
Target:  5'- aCCcUGGCuCCCGGCCaggucgcccuguUUGCGCugAGCGg -3'
miRNA:   3'- aGGaACCG-GGGCCGG------------AACGCG--UCGCg -5'
19282 3' -62 NC_004685.1 + 7335 0.71 0.192005
Target:  5'- aCCguuUGGCCCCGGCgUggaagGCGaaGGCGUg -3'
miRNA:   3'- aGGa--ACCGGGGCCGgAa----CGCg-UCGCG- -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.