miRNA display CGI


Results 1 - 17 of 17 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
24908 3' -61.6 NC_005284.1 + 33441 0.66 0.428199
Target:  5'- gCGCC-GGCcGACgaacgGGCGGUguCGUUCg -3'
miRNA:   3'- aGCGGcCCGaCUGa----CCGCCG--GCAAGg -5'
24908 3' -61.6 NC_005284.1 + 21496 0.66 0.39264
Target:  5'- -gGCCGcGCUGcuugGCaUGGCGGCCGgcgCUu -3'
miRNA:   3'- agCGGCcCGAC----UG-ACCGCCGGCaa-GG- -5'
24908 3' -61.6 NC_005284.1 + 34031 0.66 0.39264
Target:  5'- gCGCCGG-CcGACgagcgGGCGGCgcUUCCg -3'
miRNA:   3'- aGCGGCCcGaCUGa----CCGCCGgcAAGG- -5'
24908 3' -61.6 NC_005284.1 + 53883 0.67 0.375595
Target:  5'- -gGCCGGGaug---GGCGGCCGUcgUCg -3'
miRNA:   3'- agCGGCCCgacugaCCGCCGGCA--AGg -5'
24908 3' -61.6 NC_005284.1 + 22930 0.67 0.375595
Target:  5'- -aGUCGGGCUguucugaucGAUUGGCGcGCgCGUUgCu -3'
miRNA:   3'- agCGGCCCGA---------CUGACCGC-CG-GCAAgG- -5'
24908 3' -61.6 NC_005284.1 + 19389 0.67 0.359056
Target:  5'- uUCGCCgugaucgacgaGGGCggugcaggcgUGAUcGGCGcGCCGUUCg -3'
miRNA:   3'- -AGCGG-----------CCCG----------ACUGaCCGC-CGGCAAGg -5'
24908 3' -61.6 NC_005284.1 + 37155 0.67 0.335219
Target:  5'- cUCGCCGGcGCgucgaUGGCGGUCGaggacgUCUa -3'
miRNA:   3'- -AGCGGCC-CGacug-ACCGCCGGCa-----AGG- -5'
24908 3' -61.6 NC_005284.1 + 49586 0.68 0.312558
Target:  5'- aCGUCGGGCUGAUcaGCGGUC-UUCg -3'
miRNA:   3'- aGCGGCCCGACUGacCGCCGGcAAGg -5'
24908 3' -61.6 NC_005284.1 + 7945 0.68 0.291078
Target:  5'- aUCGCCGGGgUaACggagGGCgacgacgaaacGGCgGUUCCg -3'
miRNA:   3'- -AGCGGCCCgAcUGa---CCG-----------CCGgCAAGG- -5'
24908 3' -61.6 NC_005284.1 + 6665 0.69 0.277411
Target:  5'- gCGCCGGGuUUGGCga-CGGCCGgcguacgggUCCg -3'
miRNA:   3'- aGCGGCCC-GACUGaccGCCGGCa--------AGG- -5'
24908 3' -61.6 NC_005284.1 + 8064 0.69 0.270772
Target:  5'- aCGCCGgauGGUUGGC-GGCGGCUaUUCUc -3'
miRNA:   3'- aGCGGC---CCGACUGaCCGCCGGcAAGG- -5'
24908 3' -61.6 NC_005284.1 + 19536 0.7 0.239483
Target:  5'- aUCGCgGGGCggcagGGUUGGCGGUgGgacaagUCCg -3'
miRNA:   3'- -AGCGgCCCGa----CUGACCGCCGgCa-----AGG- -5'
24908 3' -61.6 NC_005284.1 + 27772 0.7 0.222198
Target:  5'- -gGCCuGaCUGAUUGGCGGCCGUa-- -3'
miRNA:   3'- agCGGcCcGACUGACCGCCGGCAagg -5'
24908 3' -61.6 NC_005284.1 + 10246 0.71 0.205986
Target:  5'- gCGCUugGGGCUGccgcgaACUGGCuGCUGUUUCg -3'
miRNA:   3'- aGCGG--CCCGAC------UGACCGcCGGCAAGG- -5'
24908 3' -61.6 NC_005284.1 + 38339 0.73 0.135899
Target:  5'- gUGCCGGGCgcGCUGGCGGCa---CCa -3'
miRNA:   3'- aGCGGCCCGacUGACCGCCGgcaaGG- -5'
24908 3' -61.6 NC_005284.1 + 45638 0.78 0.063555
Target:  5'- uUCGCgGGGCaGGCUGGCGGCuCGUc-- -3'
miRNA:   3'- -AGCGgCCCGaCUGACCGCCG-GCAagg -5'
24908 3' -61.6 NC_005284.1 + 7014 1.12 0.000173
Target:  5'- cUCGCCGGGCUGACUGGCGGCCGUUCCg -3'
miRNA:   3'- -AGCGGCCCGACUGACCGCCGGCAAGG- -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.