miRNA display CGI


Results 1 - 19 of 19 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
11578 3' -54.1 NC_003085.1 + 17833 0.65 0.749819
Target:  5'- gGCAGgccccUGGGGCAgugcuggugcccGCAGGCG-CCg-- -3'
miRNA:   3'- -CGUCa----ACCCCGUa-----------CGUCUGCaGGaag -5'
11578 3' -54.1 NC_003085.1 + 17534 0.66 0.741273
Target:  5'- -gGGaUGGGGCucGCAGuCG-CCUUCg -3'
miRNA:   3'- cgUCaACCCCGuaCGUCuGCaGGAAG- -5'
11578 3' -54.1 NC_003085.1 + 27726 0.66 0.741273
Target:  5'- cGUAGUcGGuGGCgAUGCGG-CGUCCc-- -3'
miRNA:   3'- -CGUCAaCC-CCG-UACGUCuGCAGGaag -5'
11578 3' -54.1 NC_003085.1 + 38085 0.66 0.741273
Target:  5'- cGCcGUUGGGGCcgacGCGGugugaGCGUCCc-- -3'
miRNA:   3'- -CGuCAACCCCGua--CGUC-----UGCAGGaag -5'
11578 3' -54.1 NC_003085.1 + 745 0.66 0.730486
Target:  5'- cGCGGgacaGGuGGCcgGC-GACGUCCg-- -3'
miRNA:   3'- -CGUCaa--CC-CCGuaCGuCUGCAGGaag -5'
11578 3' -54.1 NC_003085.1 + 32038 0.66 0.730486
Target:  5'- cGCGGUgaugGGGGCG-GCgAGugG-CCUg- -3'
miRNA:   3'- -CGUCAa---CCCCGUaCG-UCugCaGGAag -5'
11578 3' -54.1 NC_003085.1 + 43658 0.66 0.723963
Target:  5'- aGCAGcccggGGGGCGggguUGCAGcggagacgggcagauGCGUCCg-- -3'
miRNA:   3'- -CGUCaa---CCCCGU----ACGUC---------------UGCAGGaag -5'
11578 3' -54.1 NC_003085.1 + 29827 0.66 0.708614
Target:  5'- cGCAcgaggUGGGGCGcgacgGCGGccACGUCCUg- -3'
miRNA:   3'- -CGUca---ACCCCGUa----CGUC--UGCAGGAag -5'
11578 3' -54.1 NC_003085.1 + 879 0.66 0.697554
Target:  5'- -----cGGcGGCAcGCGGACGUCCa-- -3'
miRNA:   3'- cgucaaCC-CCGUaCGUCUGCAGGaag -5'
11578 3' -54.1 NC_003085.1 + 4112 0.66 0.697554
Target:  5'- aGCA--UGGGGCGcGguGGCGUCg-UCa -3'
miRNA:   3'- -CGUcaACCCCGUaCguCUGCAGgaAG- -5'
11578 3' -54.1 NC_003085.1 + 30173 0.66 0.697554
Target:  5'- uGUAGa-GGaGGCG-GCcGGCGUCCUUCu -3'
miRNA:   3'- -CGUCaaCC-CCGUaCGuCUGCAGGAAG- -5'
11578 3' -54.1 NC_003085.1 + 8846 0.67 0.686428
Target:  5'- aGCAGgaGGGGCG-GCcauGACGUgCaUCg -3'
miRNA:   3'- -CGUCaaCCCCGUaCGu--CUGCAgGaAG- -5'
11578 3' -54.1 NC_003085.1 + 7424 0.67 0.675246
Target:  5'- aGCGGcgcccagGGGcGCGUGUAGcccGCGUCCUc- -3'
miRNA:   3'- -CGUCaa-----CCC-CGUACGUC---UGCAGGAag -5'
11578 3' -54.1 NC_003085.1 + 15227 0.68 0.630206
Target:  5'- cGCAGagGGGGCA-GUAGuGCGUCUc-- -3'
miRNA:   3'- -CGUCaaCCCCGUaCGUC-UGCAGGaag -5'
11578 3' -54.1 NC_003085.1 + 30204 0.68 0.596404
Target:  5'- gGCuGcUGGGGCcgGCGGcggaugGCGUCCg-- -3'
miRNA:   3'- -CGuCaACCCCGuaCGUC------UGCAGGaag -5'
11578 3' -54.1 NC_003085.1 + 4857 0.69 0.529896
Target:  5'- cGCAG-UGGGGCuggacGCAGGCuccaaGUCCUcaUCu -3'
miRNA:   3'- -CGUCaACCCCGua---CGUCUG-----CAGGA--AG- -5'
11578 3' -54.1 NC_003085.1 + 2981 0.7 0.456071
Target:  5'- cCAGacUGGGGCcccGUAGAgGUCCUUCc -3'
miRNA:   3'- cGUCa-ACCCCGua-CGUCUgCAGGAAG- -5'
11578 3' -54.1 NC_003085.1 + 29715 0.73 0.311155
Target:  5'- ----cUGuGGGCAggcgGCGGAUGUCCUUCu -3'
miRNA:   3'- cgucaAC-CCCGUa---CGUCUGCAGGAAG- -5'
11578 3' -54.1 NC_003085.1 + 28992 1.12 0.000594
Target:  5'- gGCAGUUGGGGCAUGCAGACGUCCUUCa -3'
miRNA:   3'- -CGUCAACCCCGUACGUCUGCAGGAAG- -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.