Hi ArtursJu,
Probably not enough image overlap.
In case the overlap and image quality is OK, try to increase the key point limit to 40.000 and tie point limit to 4.000.
Alternatively, 'force' Photoscan to align pictures by using some markers on images it was struggling with and alos on adjacent images.
And last but not least, if the pictures are geotagged (= include lat, long & alt in the EXIF info) then choose REFERENCE for Pair preselection in the Align Photos window. This will help PhotoScan in the alignment process because it already (roughly) knows the location of each picture.
Regards
SAV