miRNA display CGI


Results 1 - 20 of 99 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
19298 3' -53.3 NC_004685.1 + 348 0.69 0.721883
Target:  5'- aCGccGGGGUCGAaugcgcGGCgagCGGUCACCaGCg -3'
miRNA:   3'- aGCuuCCUCAGCU------UCG---GCUAGUGG-CG- -5'
19298 3' -53.3 NC_004685.1 + 899 0.66 0.86366
Target:  5'- gUCGuGGGugcAGUCGGAucGgUGAUCGCCGUu -3'
miRNA:   3'- -AGCuUCC---UCAGCUU--CgGCUAGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 1357 0.71 0.61426
Target:  5'- cUGggGGAG-CaGAAGuuGAUCcuGCCGCc -3'
miRNA:   3'- aGCuuCCUCaG-CUUCggCUAG--UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 1716 0.67 0.84716
Target:  5'- gCGAAugcGGGGUUGAcGCgGAgcUUGCCGCg -3'
miRNA:   3'- aGCUU---CCUCAGCUuCGgCU--AGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 1799 0.67 0.84716
Target:  5'- uUCGAcGGccAGcgCGAcGCCGGcgCGCCGCg -3'
miRNA:   3'- -AGCUuCC--UCa-GCUuCGGCUa-GUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 2678 0.72 0.539183
Target:  5'- aUCuGGGGAGaCGcGGCCGcuGUCGCCGCc -3'
miRNA:   3'- -AGcUUCCUCaGCuUCGGC--UAGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 3230 0.68 0.802221
Target:  5'- -gGgcGGGGUCGggGUCGG--GCCGg -3'
miRNA:   3'- agCuuCCUCAGCuuCGGCUagUGGCg -5'
19298 3' -53.3 NC_004685.1 + 3311 0.68 0.811594
Target:  5'- cUCGggGG-GUUGcAGGUCGAgguucugaaACCGCg -3'
miRNA:   3'- -AGCuuCCuCAGC-UUCGGCUag-------UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 6639 0.66 0.884435
Target:  5'- gUCGAGaccuGGAa--GAGGCCGGUCuggugugggucgacACCGCg -3'
miRNA:   3'- -AGCUU----CCUcagCUUCGGCUAG--------------UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 7484 0.67 0.84716
Target:  5'- -aGAGGuGaAGUCGAAGaaGGUCACCu- -3'
miRNA:   3'- agCUUC-C-UCAGCUUCggCUAGUGGcg -5'
19298 3' -53.3 NC_004685.1 + 7998 0.67 0.829782
Target:  5'- aUC-AAGGGGUUcaAGGUCGggCGCCGCa -3'
miRNA:   3'- -AGcUUCCUCAGc-UUCGGCuaGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 8037 0.7 0.687877
Target:  5'- cCGAAGGAugucauccaGUCGGAGCUGGacaaggcguaugCGCUGCa -3'
miRNA:   3'- aGCUUCCU---------CAGCUUCGGCUa-----------GUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 8506 0.73 0.497653
Target:  5'- aCGAAGGAGa-GAAGUaaUGAUCACCGa -3'
miRNA:   3'- aGCUUCCUCagCUUCG--GCUAGUGGCg -5'
19298 3' -53.3 NC_004685.1 + 8828 0.78 0.280451
Target:  5'- aUGGAGGGGuUCGAugugcggcAGgCGGUCACCGCg -3'
miRNA:   3'- aGCUUCCUC-AGCU--------UCgGCUAGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 9088 0.77 0.30953
Target:  5'- cCGcGAGGuGUUGAAGCCGAUCcgcgaacugcACCGCc -3'
miRNA:   3'- aGC-UUCCuCAGCUUCGGCUAG----------UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 10066 0.66 0.87922
Target:  5'- cCG-AGGAGgCGGucGCCGAgauUCGCCGg -3'
miRNA:   3'- aGCuUCCUCaGCUu-CGGCU---AGUGGCg -5'
19298 3' -53.3 NC_004685.1 + 10208 0.75 0.383131
Target:  5'- cUCGGAGGAcuggCGGcuGGCCGGUCugGCCGCc -3'
miRNA:   3'- -AGCUUCCUca--GCU--UCGGCUAG--UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 10648 0.66 0.893791
Target:  5'- uUCGAGGGuga-GggGCUGgAUCGUCGCg -3'
miRNA:   3'- -AGCUUCCucagCuuCGGC-UAGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 10772 0.74 0.477428
Target:  5'- gUCGGc-GAGUCGGAGUCGAggCugCGCg -3'
miRNA:   3'- -AGCUucCUCAGCUUCGGCUa-GugGCG- -5'
19298 3' -53.3 NC_004685.1 + 12283 0.72 0.591528
Target:  5'- uUCGAGGaGGUCGugugaucGGGCCGAUgaCGCUGCg -3'
miRNA:   3'- -AGCUUCcUCAGC-------UUCGGCUA--GUGGCG- -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.