Association of the Matrix Attachment Region Recognition Signature with coding regions in Caenorhabditis elegans

Additional file 1:

Distribution of genes and MRS in C.elegans chromosomes at window sizes of 100 kb and 500 kb. Number of gene (black) and MRS (red) start positions in non-overlapping 100 kb and 500 kb windows. To account for short sequence length in the end window, the number of genes and MRS in the last window was scaled.

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Additional file 2:

Correlation between MRS frequency and distance to centre of chromosome. Each 2 Mb chromosome window was given a number based on its distance from the centre of the chromosome. The windows at the far ends chromosome were assigned 1, the next windows towards the chromosome centre were assigned 2 and so on until all windows had been assigned a number. The correlation between the MRS frequency in each window and its number was then calculated using Pearson's r correlation coefficient.

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Additional file 3:

MRS in second order Markov chain randomised chromosome I, II, III, IV, V and X. The chromosomes were randomised in non-overlapping 2 Mb windows using a second order Markov chain process. The average number of MRS over 1000 randomisations (+/- one standard deviation) in the 2 Mb windows (black) is compared with the number of MRS in real sequence (red).

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Additional file 4:

Number of MRS in random sequence of defined AT content. The number of MRS in 2 Mb of random sequence with AT content ranging from 90% to 50% was calculated. Random sequence for each AT value was generated 1000 times, error bars show +/- 1 standard deviation.

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