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
24620 5' -56.7 NC_005264.1 + 2176 0.67 0.818357
Target:  5'- -cCCCGCGGCcgUUgCCC-CUCCAUUg -3'
miRNA:   3'- caGGGCGUUGa-AGgGGGuGAGGUAGa -5'
24620 5' -56.7 NC_005264.1 + 70287 1.07 0.003424
Target:  5'- aGUCCCGCAACUUCCCCCACUCCAUCUu -3'
miRNA:   3'- -CAGGGCGUUGAAGGGGGUGAGGUAGA- -5'
24620 5' -56.7 NC_005264.1 + 3855 0.69 0.735283
Target:  5'- gGUCCUGCGccggggauuggGCUgCCCCaCGuCUCCGUCUu -3'
miRNA:   3'- -CAGGGCGU-----------UGAaGGGG-GU-GAGGUAGA- -5'
24620 5' -56.7 NC_005264.1 + 60954 0.69 0.735283
Target:  5'- uUCgCCGCgAACUUCagCCACUCCAUUg -3'
miRNA:   3'- cAG-GGCG-UUGAAGggGGUGAGGUAGa -5'
24620 5' -56.7 NC_005264.1 + 132404 0.69 0.74499
Target:  5'- -gCCCGCGGC-UCCCCCGagacCUCC-UCc -3'
miRNA:   3'- caGGGCGUUGaAGGGGGU----GAGGuAGa -5'
24620 5' -56.7 NC_005264.1 + 159645 0.68 0.764101
Target:  5'- gGUCCUGCGAaauaagcccUUCCCCGCgCCGUCg -3'
miRNA:   3'- -CAGGGCGUUga-------AGGGGGUGaGGUAGa -5'
24620 5' -56.7 NC_005264.1 + 126362 0.68 0.791871
Target:  5'- aUCCCGCGuCUucgUCCUCCGCcUCGUCa -3'
miRNA:   3'- cAGGGCGUuGA---AGGGGGUGaGGUAGa -5'
24620 5' -56.7 NC_005264.1 + 154915 0.68 0.800854
Target:  5'- cGUCUCGCGGCagcguuacgUCCCCCcaguACUCCggCg -3'
miRNA:   3'- -CAGGGCGUUGa--------AGGGGG----UGAGGuaGa -5'
24620 5' -56.7 NC_005264.1 + 82801 0.68 0.809685
Target:  5'- cUCgaCGCGACaguggucUCCCCCGCUCCAa-- -3'
miRNA:   3'- cAGg-GCGUUGa------AGGGGGUGAGGUaga -5'
24620 5' -56.7 NC_005264.1 + 9587 0.67 0.815773
Target:  5'- -gCCCGCAGuagUCCCCCcccaugcgccgaagGCUCCGUa- -3'
miRNA:   3'- caGGGCGUUga-AGGGGG--------------UGAGGUAga -5'
24620 5' -56.7 NC_005264.1 + 159084 0.66 0.892679
Target:  5'- -gCCCGCAGCgcCccggcggcaagaggCCCCGCUCCucGUCg -3'
miRNA:   3'- caGGGCGUUGaaG--------------GGGGUGAGG--UAGa -5'
24620 5' -56.7 NC_005264.1 + 102789 0.67 0.82686
Target:  5'- uGUCUacguggCGCAAUucuuUUCCCCCACcaugcggcgccUCCGUCUa -3'
miRNA:   3'- -CAGG------GCGUUG----AAGGGGGUG-----------AGGUAGA- -5'
24620 5' -56.7 NC_005264.1 + 59152 0.66 0.887976
Target:  5'- -gCCCuCAACUUCCCCCucGC-CCAgCUg -3'
miRNA:   3'- caGGGcGUUGAAGGGGG--UGaGGUaGA- -5'
24620 5' -56.7 NC_005264.1 + 76909 0.67 0.835187
Target:  5'- cUCCCaggagggaGCGACgaCCCCCuucuauuCUCCGUCg -3'
miRNA:   3'- cAGGG--------CGUUGaaGGGGGu------GAGGUAGa -5'
24620 5' -56.7 NC_005264.1 + 48160 0.67 0.834363
Target:  5'- aUCCUGCucggcguGGCUgcaCCCCCGCUUCAUg- -3'
miRNA:   3'- cAGGGCG-------UUGAa--GGGGGUGAGGUAga -5'
24620 5' -56.7 NC_005264.1 + 119077 0.66 0.887976
Target:  5'- aGUCuCCGUaAACUguucUCCCCCacGCUCCAg-- -3'
miRNA:   3'- -CAG-GGCG-UUGA----AGGGGG--UGAGGUaga -5'
24620 5' -56.7 NC_005264.1 + 105904 0.66 0.873938
Target:  5'- aUCCUGCGucuccGCUUgCCCCCucuACgCCAUCUu -3'
miRNA:   3'- cAGGGCGU-----UGAA-GGGGG---UGaGGUAGA- -5'
24620 5' -56.7 NC_005264.1 + 35889 0.68 0.800854
Target:  5'- cGUCUCGCGGCagcguuacgUCCCCCcaguACUCCggCg -3'
miRNA:   3'- -CAGGGCGUUGa--------AGGGGG----UGAGGuaGa -5'
24620 5' -56.7 NC_005264.1 + 7335 0.68 0.791871
Target:  5'- aUCCCGCGuCUucgUCCUCCGCcUCGUCa -3'
miRNA:   3'- cAGGGCGUuGA---AGGGGGUGaGGUAGa -5'
24620 5' -56.7 NC_005264.1 + 48543 0.69 0.725487
Target:  5'- cGUCCCGCGcg--CCCCCGucgcCUUCGUCg -3'
miRNA:   3'- -CAGGGCGUugaaGGGGGU----GAGGUAGa -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.