Hi All,

Does anyone have any experience in using RSTA matrix SCAN (Scan a DNA sequence with a profile matrix using Enrichment of hits in the whole input sequence set as the output).

I am having difficult time interpreting the results. I am not sure what each column means. Can someone help me or guide me to a document that has the information.

Thanks in advance!

Mamta

The results are:

 Matrices
;   matrix  name                    ncol    nrow    pseudo  Wmin    Wmax    Wrange
;   1   matrix-scan_2014-06-26  13  4   1   -63.400 12.300  75.700  a:0.248 c:0.249 g:0.250 t:0.252 
;
; Score distribution
#matrix score   occ occ_cum inv_cum inv_cum_freq    occ_prior   exp_occ occ_Pval    occ_Eval    occ_sig occ_sig_rank
matrix-scan_2014-06-26  9.1 12  2043729 75  3.669649e-05    2.600001e-05    53.14   2.695296e-03    2.964825e-01    0.53    1
matrix-scan_2014-06-26  8.9 10  2043713 89  4.354651e-05    3.182152e-05    65.04   2.749938e-03    3.024932e-01    0.52    2
matrix-scan_2014-06-26  8.8 7   2043703 96  4.697151e-05    3.529880e-05    72.14   4.178636e-03    4.596500e-01    0.34    3
matrix-scan_2014-06-26  9.0 4   2043717 79  3.865364e-05    2.875095e-05    58.76   6.780537e-03    7.458590e-01    0.13    4
matrix-scan_2014-06-26  8.7 6   2043696 102 4.990723e-05    3.879382e-05    79.29   8.019685e-03    8.821654e-01    0.05    5
; Number of sequences scanned   342
; Sum of sequence lengths   1026000
; N residues            0
; Matches per matrix
;   matrix  name                    matches scored
;   1   matrix-scan_2014-06-26  2651    2043792
;       TOTAL           2651    2043792