To get the same result, transpose the array and then plot.
TEE =[3 8 9 12 3 2];
TEE1=[98 45 32 45 1 8];
TEE2(1,:)=TEE;
TEE2(2,:)=TEE1;
figure
hold on
plot(TEE)
plot(TEE1)
hold off
figure
%% Plot the transpose of the array
plot(TEE2.')