| Interval # | Reference number, for linking summary spread sheets, interval plots, and binding region picks, in most cases it is also a rank relative to the best 350bp mean intensity difference sub window within an interval. |
| Chromosome | |
| Start Interval | Interval start position |
| Stop Interval | Interval stop position |
| Length Interval | Interval length in bp |
| # Oligos in Interval | The number of oligos in the interval |
| # Windows in Interval | The number of overlapping windows merged together to construct the interval |
| Size BIW (Best Intensity Window, Ratio or Difference) | Size of the Best Intensity Window (Ratio or Difference) BIW, bps |
| Mean BIW Treatment Ints | Mean treatment, best BIW |
| Mean BIW Control Ints | Mean control, best BIW |
| Trimmed Mean Relative Difference Score, BIW | Trimmed Mean relative difference ((t-c)/(t+c)/2) of the best BIW |
| Trimmed Mean Ratio Score, BIW | Trimmed mean natural ratio score (individual oligo ratios) for the best BIW |
| Trimmed Mean Log2 Ratio Score, BIW | Trimmed mean log2 ratio scores (individual oligo log2 ratios) for the best BIW |
| Size Best Stat Window | Size of best Stat Window, bps |
| Best Stat Window Score | Wilcoxon Rank Sum score |
| Start Sub Window | Start bp of the best fold difference sub window within the Interval. |
| Stop Sub Window | Stop bp of the best sub window |
| # Oligos Sub Window | The number oligos in the best sub window |
| Mean Sub Window Treatment Ints | Mean treatment values, best sub window |
| Mean Sub Window Control Ints | Mean control values, best sub window |
| Mean Intensity Diff, Sub Window | Mean intensity difference of the best sub window |
| Median Intensity Diff, Sub Window | Median intensity difference of the best sub window |
| Mean Fold Diff, Sub Window | Mean fold difference of the best sub window (mean of the individual ratios) |
| Median Fold Diff, Sub Window | Median fold difference of the best sub window (median of the individual ratios) |
| BindingPeaks, position (smoothed ratio score) | Binding peak information based on smoothed ratio scores. |
| Coef of Var Treatment Ints | Stnd Dev Treatment Intensities/ Mean for the best BIW. Tells you something about how much variation exists within the treatment values. The less variation the better. Singletons and one chip drivers will increase the variation. |
| Coef of Var Control Ints | Stnd Dev Control Intensities/ Mean for typically the best BIW. Tells you something about how much variation exists within the control values. The less variation the better. Singletons and one chip drivers will increase the variation. |
| Motif Hits Per KB | Number of hits, above a certain cut off, per kb found in typically the best AID Window or if so specified in the entire Interval. |
| Motif Hits in Max Cluster | Maximum number of hits, above a set cut off, within the best scoring window, typically 350bp, within the Interval. |
| Sum Motif Hit Scores/ Length | Sum of all the LLPSPM scores > 0 |
| Sequence (Interval or Best AID Window) | Sequence (entire interval or best BIW) |