miRNA display CGI


Results 1 - 20 of 59 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
29134 3' -48.7 NC_006146.1 + 3726 0.67 0.997853
Target:  5'- -----aGGG--UCUCuGGGGGCCGCGUg -3'
miRNA:   3'- caugaaCCUuaAGAG-UUUCCGGCGCG- -5'
29134 3' -48.7 NC_006146.1 + 11772 0.66 0.999338
Target:  5'- -gGCUuccUGGAAcaaaCUCAgGAGGCCGUGa -3'
miRNA:   3'- caUGA---ACCUUaa--GAGU-UUCCGGCGCg -5'
29134 3' -48.7 NC_006146.1 + 14325 0.66 0.998997
Target:  5'- cUGCU-GGAGaaCUCAcgcAGGGCCGuUGCg -3'
miRNA:   3'- cAUGAaCCUUaaGAGU---UUCCGGC-GCG- -5'
29134 3' -48.7 NC_006146.1 + 21030 0.78 0.739515
Target:  5'- aGUGCcgGGGAUUCUCGGAGggcgagacGCUGCGCu -3'
miRNA:   3'- -CAUGaaCCUUAAGAGUUUC--------CGGCGCG- -5'
29134 3' -48.7 NC_006146.1 + 31613 0.71 0.976224
Target:  5'- -cACggGGGAUgggCUC-AAGGCCGgGCc -3'
miRNA:   3'- caUGaaCCUUAa--GAGuUUCCGGCgCG- -5'
29134 3' -48.7 NC_006146.1 + 35503 0.69 0.98982
Target:  5'- -aGCcUGGggUUC-----GGCCGCGCg -3'
miRNA:   3'- caUGaACCuuAAGaguuuCCGGCGCG- -5'
29134 3' -48.7 NC_006146.1 + 44086 0.69 0.98982
Target:  5'- -gACUgGGGugGUUC-CAccucGGGCCGCGCg -3'
miRNA:   3'- caUGAaCCU--UAAGaGUu---UCCGGCGCG- -5'
29134 3' -48.7 NC_006146.1 + 44221 0.67 0.99821
Target:  5'- gGUGcCUUGGugaccgUCUCcucuGGCCGgGCg -3'
miRNA:   3'- -CAU-GAACCuua---AGAGuuu-CCGGCgCG- -5'
29134 3' -48.7 NC_006146.1 + 44419 0.72 0.956632
Target:  5'- -aGCUUGGAGUaacacCGAAGGUgCGCGCg -3'
miRNA:   3'- caUGAACCUUAaga--GUUUCCG-GCGCG- -5'
29134 3' -48.7 NC_006146.1 + 49455 0.67 0.996957
Target:  5'- uGUACUUcuccaugaccGGGAUgg-UGAGGGCCGCGg -3'
miRNA:   3'- -CAUGAA----------CCUUAagaGUUUCCGGCGCg -5'
29134 3' -48.7 NC_006146.1 + 51971 0.66 0.998776
Target:  5'- -gACggGGAggUCUCcggcaugcGGGCCGgGCg -3'
miRNA:   3'- caUGaaCCUuaAGAGuu------UCCGGCgCG- -5'
29134 3' -48.7 NC_006146.1 + 53494 0.66 0.999338
Target:  5'- -gGCcgGGggUgcggucuggCUCuggcugcGGGCCGCGCg -3'
miRNA:   3'- caUGaaCCuuAa--------GAGuu-----UCCGGCGCG- -5'
29134 3' -48.7 NC_006146.1 + 55455 0.68 0.995052
Target:  5'- aGUACcgUGGccacccgCUCGAuGGCCGCGg -3'
miRNA:   3'- -CAUGa-ACCuuaa---GAGUUuCCGGCGCg -5'
29134 3' -48.7 NC_006146.1 + 62907 0.7 0.983118
Target:  5'- uGUACUuUGGGguGUUUUCAgaugcggaggguGAGGCUGUGCc -3'
miRNA:   3'- -CAUGA-ACCU--UAAGAGU------------UUCCGGCGCG- -5'
29134 3' -48.7 NC_006146.1 + 64428 0.72 0.958202
Target:  5'- aUACUUGGggU-CUCGGcgccgagacagccuuGGGUgGCGCu -3'
miRNA:   3'- cAUGAACCuuAaGAGUU---------------UCCGgCGCG- -5'
29134 3' -48.7 NC_006146.1 + 67194 0.72 0.960483
Target:  5'- --cCUUGGGAUUC-CAcuGGCCGUGg -3'
miRNA:   3'- cauGAACCUUAAGaGUuuCCGGCGCg -5'
29134 3' -48.7 NC_006146.1 + 69973 0.68 0.994235
Target:  5'- -aGCUUGucAUUCUgGAAGGCguaGCGUa -3'
miRNA:   3'- caUGAACcuUAAGAgUUUCCGg--CGCG- -5'
29134 3' -48.7 NC_006146.1 + 74223 0.66 0.999183
Target:  5'- cGUGC-UGGAGaccUUCUUcuucAGGCCcuGCGCg -3'
miRNA:   3'- -CAUGaACCUU---AAGAGuu--UCCGG--CGCG- -5'
29134 3' -48.7 NC_006146.1 + 75794 0.66 0.999467
Target:  5'- cUACUcGGGcgUCUCGggcgccgccuucGAGGCCcUGCg -3'
miRNA:   3'- cAUGAaCCUuaAGAGU------------UUCCGGcGCG- -5'
29134 3' -48.7 NC_006146.1 + 89462 0.66 0.999338
Target:  5'- gGUGCagcgGGAGUUUUCu-GGGuuGCGg -3'
miRNA:   3'- -CAUGaa--CCUUAAGAGuuUCCggCGCg -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.