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 + 52757 1.12 0.001668
Target:  5'- cUCGAAGGAGUCGAAGCCGAUCACCGCc -3'
miRNA:   3'- -AGCUUCCUCAGCUUCGGCUAGUGGCG- -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 + 49420 0.76 0.369228
Target:  5'- gUCGAGGGuuucggcgacccaguGGUCGAcGGCgCGAUgACCGCa -3'
miRNA:   3'- -AGCUUCC---------------UCAGCU-UCG-GCUAgUGGCG- -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 + 28033 0.75 0.391995
Target:  5'- aUUGAAGcGGGcCGAugacgacaGGCCGAUgCACCGCg -3'
miRNA:   3'- -AGCUUC-CUCaGCU--------UCGGCUA-GUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 43437 0.74 0.438257
Target:  5'- gCGAAcacGGAGUCGuAGuuGGUCGCCuGCu -3'
miRNA:   3'- aGCUU---CCUCAGCuUCggCUAGUGG-CG- -5'
19298 3' -53.3 NC_004685.1 + 56104 0.74 0.467469
Target:  5'- cUCGggGGucagguuguugaAGUCGAGGaCCGGacugUCGCCGUc -3'
miRNA:   3'- -AGCuuCC------------UCAGCUUC-GGCU----AGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 38720 0.74 0.477428
Target:  5'- cCGcuGcccuGUCGAugAGCCGAUCGCCGCu -3'
miRNA:   3'- aGCuuCcu--CAGCU--UCGGCUAGUGGCG- -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 + 68276 0.73 0.487491
Target:  5'- -aGGAGGuGUUcgGAAGCCGAacaggcgCGCCGCg -3'
miRNA:   3'- agCUUCCuCAG--CUUCGGCUa------GUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 38317 0.73 0.487491
Target:  5'- gUGAAGGcG-CGGgccuGGCCGAUCugCGCg -3'
miRNA:   3'- aGCUUCCuCaGCU----UCGGCUAGugGCG- -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 + 2678 0.72 0.539183
Target:  5'- aUCuGGGGAGaCGcGGCCGcuGUCGCCGCc -3'
miRNA:   3'- -AGcUUCCUCaGCuUCGGC--UAGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 38532 0.72 0.539183
Target:  5'- aUCGAA-GAGUCcauGCCGAUCGgCGCu -3'
miRNA:   3'- -AGCUUcCUCAGcuuCGGCUAGUgGCG- -5'
19298 3' -53.3 NC_004685.1 + 35901 0.72 0.549756
Target:  5'- cUGAAGGugcGGUCGcugucGCCGA-CACCGCg -3'
miRNA:   3'- aGCUUCC---UCAGCuu---CGGCUaGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 53120 0.72 0.571085
Target:  5'- gCGAcGGcagcgcccagcGGUCGAGcGCCGccAUCACCGCg -3'
miRNA:   3'- aGCUuCC-----------UCAGCUU-CGGC--UAGUGGCG- -5'
19298 3' -53.3 NC_004685.1 + 34341 0.72 0.571085
Target:  5'- cUUGAAGGccGGuUCGccAAGCCGAUC-CCGCc -3'
miRNA:   3'- -AGCUUCC--UC-AGC--UUCGGCUAGuGGCG- -5'
19298 3' -53.3 NC_004685.1 + 18419 0.72 0.577524
Target:  5'- gCGAGGGuGUCGAGGUgGAgcggacacucaaGCCGCu -3'
miRNA:   3'- aGCUUCCuCAGCUUCGgCUag----------UGGCG- -5'
19298 3' -53.3 NC_004685.1 + 58344 0.72 0.581826
Target:  5'- ----cGGuGUCGggGCgGGUCGCCGg -3'
miRNA:   3'- agcuuCCuCAGCuuCGgCUAGUGGCg -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.