miRNA display CGI


Results 1 - 16 of 16 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
18249 3' -55.9 NC_004681.1 + 28605 0.66 0.815803
Target:  5'- aUGaCCGcGGGGGUgCCCGGGGugaGUGUg -3'
miRNA:   3'- aGCaGGC-CCUCCA-GGGUCUUug-CACG- -5'
18249 3' -55.9 NC_004681.1 + 3614 0.66 0.815803
Target:  5'- -aGUCaGGGAcuUCCCGGcgaggaAGACGUGCg -3'
miRNA:   3'- agCAGgCCCUccAGGGUC------UUUGCACG- -5'
18249 3' -55.9 NC_004681.1 + 68113 0.66 0.806736
Target:  5'- cUUG-CCGGGAGG-CCCGaAGGCGUu- -3'
miRNA:   3'- -AGCaGGCCCUCCaGGGUcUUUGCAcg -5'
18249 3' -55.9 NC_004681.1 + 49626 0.66 0.768868
Target:  5'- gUCGUCCGGuGAacgagaagGaGUgCCGGGAGCGgGCc -3'
miRNA:   3'- -AGCAGGCC-CU--------C-CAgGGUCUUUGCaCG- -5'
18249 3' -55.9 NC_004681.1 + 24475 0.67 0.718673
Target:  5'- gCG-CCGGGAGaGUUCCAGcgcuACGaGCu -3'
miRNA:   3'- aGCaGGCCCUC-CAGGGUCuu--UGCaCG- -5'
18249 3' -55.9 NC_004681.1 + 15799 0.67 0.718673
Target:  5'- uUCGcCCGGuAGGUgUCCAugaccuccGAGGCGUGCu -3'
miRNA:   3'- -AGCaGGCCcUCCA-GGGU--------CUUUGCACG- -5'
18249 3' -55.9 NC_004681.1 + 58908 0.68 0.697967
Target:  5'- cUGUCCGGGugAGG-CCCAGcaacuccuGGGCGcGCg -3'
miRNA:   3'- aGCAGGCCC--UCCaGGGUC--------UUUGCaCG- -5'
18249 3' -55.9 NC_004681.1 + 49000 0.68 0.655923
Target:  5'- cUUGUaCGGGAcGGUCCCGcGuAGACGUGa -3'
miRNA:   3'- -AGCAgGCCCU-CCAGGGU-C-UUUGCACg -5'
18249 3' -55.9 NC_004681.1 + 30921 0.69 0.592416
Target:  5'- -gGUCCGGGcAGGUaggCCCAGGc-CGUGg -3'
miRNA:   3'- agCAGGCCC-UCCA---GGGUCUuuGCACg -5'
18249 3' -55.9 NC_004681.1 + 25428 0.7 0.581892
Target:  5'- cCGUCuCGGGAGGggUCGGugGCGUGg -3'
miRNA:   3'- aGCAG-GCCCUCCagGGUCuuUGCACg -5'
18249 3' -55.9 NC_004681.1 + 28580 0.7 0.560969
Target:  5'- -aG-CUGGGGGGUCCCAGugguGACGa-- -3'
miRNA:   3'- agCaGGCCCUCCAGGGUCu---UUGCacg -5'
18249 3' -55.9 NC_004681.1 + 18933 0.7 0.557847
Target:  5'- cCGUCgCGGGAGcgcagaacggcuuuGUCCCcaagagauucGggGCGUGCa -3'
miRNA:   3'- aGCAG-GCCCUC--------------CAGGGu---------CuuUGCACG- -5'
18249 3' -55.9 NC_004681.1 + 22464 0.7 0.550583
Target:  5'- aCGUCgGGGAGGUCCUcGc--CGUGg -3'
miRNA:   3'- aGCAGgCCCUCCAGGGuCuuuGCACg -5'
18249 3' -55.9 NC_004681.1 + 7739 0.7 0.549548
Target:  5'- aCGggCCGGG-GGUCCCccaugagGGAGACGgucugGCc -3'
miRNA:   3'- aGCa-GGCCCuCCAGGG-------UCUUUGCa----CG- -5'
18249 3' -55.9 NC_004681.1 + 59421 0.72 0.438722
Target:  5'- cCGUCCGGGguccuggccacgcaGGaGUCCCcGGAACG-GCa -3'
miRNA:   3'- aGCAGGCCC--------------UC-CAGGGuCUUUGCaCG- -5'
18249 3' -55.9 NC_004681.1 + 924 1.13 0.000817
Target:  5'- aUCGUCCGGGAGGUCCCAGAAACGUGCg -3'
miRNA:   3'- -AGCAGGCCCUCCAGGGUCUUUGCACG- -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.