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\label{fig:H1N1Ht_seg2}  Summary statistics at each genome position for H1H1 Segment 2. The top and bottom panels are from Replicates I \& II, respectively. The small green circles and blue pluses are the $Ht(D_i)$ values and $Ht(N_i)$ values, respectively. Within each replicate, for genome site $i$ that belongs to the signal set, its $Ht(D_i)$ value is highlighted in a large red circle. The dotted lines are the thresholds obtained from our method (see Figure \ref{fig:H1N1Ct2}). There is no signal detected in Seg2E1, while there is one signal site (red circle) in the bottom panel corresponding to genome site S2-2099. We conclude that there is no substitution sites on Segment 2.