miRNA display CGI


Results 1 - 20 of 21 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
13109 5' -53 NC_003401.1 + 132679 0.66 0.968613
Target:  5'- cGggGCG-CCUCGGCGgggcccGGCGCGGg- -3'
miRNA:   3'- -CuuUGUgGGAGCUGCau----CUGCGUCga -5'
13109 5' -53 NC_003401.1 + 118730 0.66 0.968613
Target:  5'- --cGCGCCgCUUGGCG---GCGCGGCUu -3'
miRNA:   3'- cuuUGUGG-GAGCUGCaucUGCGUCGA- -5'
13109 5' -53 NC_003401.1 + 39762 0.66 0.968613
Target:  5'- ---cCGCCUcucuccaguUUGGCGUGGACGC-GCUg -3'
miRNA:   3'- cuuuGUGGG---------AGCUGCAUCUGCGuCGA- -5'
13109 5' -53 NC_003401.1 + 94491 0.66 0.958233
Target:  5'- -uGGCGCUCUCGGCGUcaAgGUAGCc -3'
miRNA:   3'- cuUUGUGGGAGCUGCAucUgCGUCGa -5'
13109 5' -53 NC_003401.1 + 109901 0.66 0.954304
Target:  5'- --uACACaaaCUCGAgaUGaUAGACGCAGCc -3'
miRNA:   3'- cuuUGUGg--GAGCU--GC-AUCUGCGUCGa -5'
13109 5' -53 NC_003401.1 + 132217 0.66 0.954304
Target:  5'- gGAGGCGCCCggcCGGCGccgccgccgGGcCGCGGCc -3'
miRNA:   3'- -CUUUGUGGGa--GCUGCa--------UCuGCGUCGa -5'
13109 5' -53 NC_003401.1 + 28381 0.66 0.950133
Target:  5'- ---cCACCCUCGAUGccGGCaacgGCGGCg -3'
miRNA:   3'- cuuuGUGGGAGCUGCauCUG----CGUCGa -5'
13109 5' -53 NC_003401.1 + 132684 0.67 0.941048
Target:  5'- uGggGCcccggGCCCggggGGCGUcgGGGCGCGGCg -3'
miRNA:   3'- -CuuUG-----UGGGag--CUGCA--UCUGCGUCGa -5'
13109 5' -53 NC_003401.1 + 74665 0.67 0.936129
Target:  5'- cGAGUAUCUUCGuCGUuuuGACGCGGCUa -3'
miRNA:   3'- cUUUGUGGGAGCuGCAu--CUGCGUCGA- -5'
13109 5' -53 NC_003401.1 + 133650 0.68 0.913911
Target:  5'- cGGACGCCCUCG-C----ACGCAGCUg -3'
miRNA:   3'- cUUUGUGGGAGCuGcaucUGCGUCGA- -5'
13109 5' -53 NC_003401.1 + 935 0.68 0.913911
Target:  5'- cGGACGCCCUCG-C----ACGCAGCUg -3'
miRNA:   3'- cUUUGUGGGAGCuGcaucUGCGUCGA- -5'
13109 5' -53 NC_003401.1 + 20280 0.68 0.913911
Target:  5'- cGAcGCGCCCgggGACGcGGACGCcGCg -3'
miRNA:   3'- -CUuUGUGGGag-CUGCaUCUGCGuCGa -5'
13109 5' -53 NC_003401.1 + 79757 0.68 0.894595
Target:  5'- aGAAAgACCgCUCGAUGcAGAUaGCGGCa -3'
miRNA:   3'- -CUUUgUGG-GAGCUGCaUCUG-CGUCGa -5'
13109 5' -53 NC_003401.1 + 22357 0.69 0.887663
Target:  5'- aGAAACACCaUUaACGcAGACGCGGCc -3'
miRNA:   3'- -CUUUGUGGgAGcUGCaUCUGCGUCGa -5'
13109 5' -53 NC_003401.1 + 44008 0.69 0.879761
Target:  5'- --uACGCCCUgGACGUGGACcccguugggucgaGCucAGCUa -3'
miRNA:   3'- cuuUGUGGGAgCUGCAUCUG-------------CG--UCGA- -5'
13109 5' -53 NC_003401.1 + 18284 0.69 0.865446
Target:  5'- aGAGACACCCUUGugGccGcCGCcGCg -3'
miRNA:   3'- -CUUUGUGGGAGCugCauCuGCGuCGa -5'
13109 5' -53 NC_003401.1 + 72601 0.7 0.844558
Target:  5'- aAGACGCCCUCGccggaauuaguauccGCGUGGACGUg--- -3'
miRNA:   3'- cUUUGUGGGAGC---------------UGCAUCUGCGucga -5'
13109 5' -53 NC_003401.1 + 8911 0.7 0.832727
Target:  5'- cAGGCGCCCUgUGGCGgcGAC-CGGCUg -3'
miRNA:   3'- cUUUGUGGGA-GCUGCauCUGcGUCGA- -5'
13109 5' -53 NC_003401.1 + 15037 0.71 0.787532
Target:  5'- --uGCGCCaCgcgCGACGgcGACGCGGUg -3'
miRNA:   3'- cuuUGUGG-Ga--GCUGCauCUGCGUCGa -5'
13109 5' -53 NC_003401.1 + 91425 0.75 0.550758
Target:  5'- aGGGACGCCUcCGACGUGuacgugcccauGGCGCGGCg -3'
miRNA:   3'- -CUUUGUGGGaGCUGCAU-----------CUGCGUCGa -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.