Henk, Your screenshots are very helpful. Starting from this point in the processing, the panorama can be straightened or levelled to get the horizon straight and flat by using a manual method described in this tutorial:
Then switch Ptgui into Advanced mode and select the Image Parameters tab.
Optionally switch on image numbers in the Panorama Editor window (the icon of a square with "3" in it) to identify overlapping images.
You are now quipped to calculate the precise horizontal and vertical spacing of the rows and columns.
Display the very accurate value of a parameter in the yaw and pitch columns by double click on the initially displayed short value.
So having established the true horizontal and vertical spacing, rerun Align Images using the new accurate parameters and you should see a complete panorama with no holes. Then run the optimizer to align the images accurately (not Align Images).
The key to using PTGui most effectively is to get to know the Optimizer. Try reading through my very old out-of-date tutorial:
PANORAMA TOOLS - USING THE OPTIMIZER . Things have changed a lot since then but you should get the general idea of how it works.
Let us know how you get on!
John