miRNA display CGI


Results 1 - 20 of 23 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
19793 5' -55.9 NC_004687.1 + 127837 0.66 0.926098
Target:  5'- uCUUCcugcguGAGGUCCgGCGccGGaUCGUCCUCg- -3'
miRNA:   3'- -GAAG------UUCCAGG-CGU--CC-AGCAGGAGga -5'
19793 5' -55.9 NC_004687.1 + 84632 0.66 0.926098
Target:  5'- --gCAGGGUCUGCAGGUaggccaaccgCGUgCC-CCg -3'
miRNA:   3'- gaaGUUCCAGGCGUCCA----------GCA-GGaGGa -5'
19793 5' -55.9 NC_004687.1 + 143470 0.66 0.920635
Target:  5'- -gUCGGGGg-UGCGGGgcaucaGUCCUCCa -3'
miRNA:   3'- gaAGUUCCagGCGUCCag----CAGGAGGa -5'
19793 5' -55.9 NC_004687.1 + 135294 0.66 0.902825
Target:  5'- aCUUCGucgcGGUCCGuCGGGUCGcgcuggaucucaUCCgugCCg -3'
miRNA:   3'- -GAAGUu---CCAGGC-GUCCAGC------------AGGa--GGa -5'
19793 5' -55.9 NC_004687.1 + 23777 0.67 0.889787
Target:  5'- -gUCAAGGUCCuGC-GGUCGcgCCgagCCc -3'
miRNA:   3'- gaAGUUCCAGG-CGuCCAGCa-GGa--GGa -5'
19793 5' -55.9 NC_004687.1 + 96467 0.67 0.889787
Target:  5'- -gUCGcGGUCgGCAGGacCGUCCgcgCCg -3'
miRNA:   3'- gaAGUuCCAGgCGUCCa-GCAGGa--GGa -5'
19793 5' -55.9 NC_004687.1 + 75514 0.67 0.889787
Target:  5'- ----cGGGUaCC-CAGGUCGUCCcgUCCUg -3'
miRNA:   3'- gaaguUCCA-GGcGUCCAGCAGG--AGGA- -5'
19793 5' -55.9 NC_004687.1 + 24474 0.67 0.868548
Target:  5'- ----cAGGUuacugaucgcCCGCAGGUUGUCgUCCa -3'
miRNA:   3'- gaaguUCCA----------GGCGUCCAGCAGgAGGa -5'
19793 5' -55.9 NC_004687.1 + 47323 0.67 0.868548
Target:  5'- --aCGAGGUaCCGCugcaugaucuGGUCGUUCUUCa -3'
miRNA:   3'- gaaGUUCCA-GGCGu---------CCAGCAGGAGGa -5'
19793 5' -55.9 NC_004687.1 + 74216 0.67 0.861039
Target:  5'- -gUCAGGGUCCaGC-GGUCGcCCagggCCUc -3'
miRNA:   3'- gaAGUUCCAGG-CGuCCAGCaGGa---GGA- -5'
19793 5' -55.9 NC_004687.1 + 66261 0.67 0.861039
Target:  5'- -gUCGAGGcgCCGUcgAGGUCGaUCCagUCCUc -3'
miRNA:   3'- gaAGUUCCa-GGCG--UCCAGC-AGG--AGGA- -5'
19793 5' -55.9 NC_004687.1 + 15145 0.67 0.853324
Target:  5'- aCUUCGAGGU-CGUcgAGGUCGaggUCCUCg- -3'
miRNA:   3'- -GAAGUUCCAgGCG--UCCAGC---AGGAGga -5'
19793 5' -55.9 NC_004687.1 + 61360 0.67 0.850971
Target:  5'- --gUAGGGUCUGCgguaguugaugaccAGGUCGUCCcagUCCc -3'
miRNA:   3'- gaaGUUCCAGGCG--------------UCCAGCAGG---AGGa -5'
19793 5' -55.9 NC_004687.1 + 102235 0.68 0.82817
Target:  5'- --cCAGGGUcuugggaCCGCAGGUCGggCCgaugCCg -3'
miRNA:   3'- gaaGUUCCA-------GGCGUCCAGCa-GGa---GGa -5'
19793 5' -55.9 NC_004687.1 + 101990 0.68 0.818823
Target:  5'- gUUCgGGGGUCCagGCAGGgucauggggaaGUCCUCCUc -3'
miRNA:   3'- gAAG-UUCCAGG--CGUCCag---------CAGGAGGA- -5'
19793 5' -55.9 NC_004687.1 + 123745 0.69 0.794134
Target:  5'- -gUCGGGGUCCaCAGcUCGUCC-CCg -3'
miRNA:   3'- gaAGUUCCAGGcGUCcAGCAGGaGGa -5'
19793 5' -55.9 NC_004687.1 + 80525 0.69 0.765478
Target:  5'- uCUUCGGcuGGUCCGaagagaaCGGGUUGcCCUCCUu -3'
miRNA:   3'- -GAAGUU--CCAGGC-------GUCCAGCaGGAGGA- -5'
19793 5' -55.9 NC_004687.1 + 65534 0.7 0.727849
Target:  5'- ---aGAGGUCgGcCAGGuacagcUCGUCCUCCUc -3'
miRNA:   3'- gaagUUCCAGgC-GUCC------AGCAGGAGGA- -5'
19793 5' -55.9 NC_004687.1 + 83397 0.71 0.64427
Target:  5'- cCUUCAcuuagagaggacggAGGUCUGCAGG-C-UCCUCCg -3'
miRNA:   3'- -GAAGU--------------UCCAGGCGUCCaGcAGGAGGa -5'
19793 5' -55.9 NC_004687.1 + 38790 0.72 0.606507
Target:  5'- -gUCGAGGcCCuuguuggccaGCAGGUCGUCCUUg- -3'
miRNA:   3'- gaAGUUCCaGG----------CGUCCAGCAGGAGga -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.