Daphnia pulex scaffold dotplot

Quick and rough scan of genome for duplications of segmental (between scaffolds), and tandem (diagonal on same scaffold) types.
Note: Self-matches are removed (the true diagonal) so that any near-diagonal lines are due to nearby duplications.
Courtesy of Megablast (NCBI), and DiagHunter by Steve Cannon, who wrote it to find Arabidopsis segmental and tandem regions.

Scaffold Self-matches

Scaffolds 1 to 6 self-match

Scaf_1	Scaf_2	Scaf_3	Scaf_4	Scaf_5	Scaf_6

Scaffolds 7 to 12 self-match

Scaf_7	Scaf_8	Scaf_9	Scaf_10	Scaf_11	Scaf_12

Scaffolds 13 to 18 self-match

Scaf_13	Scaf_14	Scaf_15	Scaf_16	Scaf_17	Scaf_18

Scaffolds 19 to 24 self-match

Scaf_19	Scaf_20	Scaf_21	Scaf_22	Scaf_23	Scaf_24

Scaffolds 25 to 29 self-match

Scaf_25	Scaf_26	Scaf_27	Scaf_28	Scaf_29

Cross-Scaffold matches

Scaffolds 1 to 29 cross-match

Sc1	Scaf_1	Scaf_2	Scaf_3	Scaf_4	Scaf_5	Scaf_6	Scaf_7	Scaf_8	Scaf_9	Scaf_10	Scaf_11	Scaf_12	Scaf_13	Scaf_14	Scaf_15	Scaf_16	Scaf_17	Scaf_18	Scaf_19	Scaf_20	Scaf_21	Scaf_22	Scaf_23	Scaf_24	Scaf_25	Scaf_26	Scaf_27	Scaf_28	Scaf_29
Sc1
Sc2
Sc3
Sc4
Sc5
Sc6
Sc7
Sc8
Sc9
Sc10
Sc11
Sc12
Sc13
Sc14
Sc15
Sc16
Sc17
Sc18
Sc19
Sc20
Sc21
Sc22
Sc23
Sc24
Sc25
Sc26
Sc27
Sc28
Sc29