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$ perl -lne 'sub prt{@c && print scalar @c,"\n",join ", ",@c;@c=();pri +nt} />/?prt:push @c,$_}{prt' TheFileName
>05143_African_trypanosomiasis 4 ... >05145_Toxoplasmosis 7 43736, 38319, 38320, 38320, TRINITY_DN24151_c3_g1, TRINITY_DN25493_c0_ +g1