Remove scratches from binary image

Hi everybody,

right now I am struggling with a problem. I got a binary image which contains unwanted scratches. In the uploaded image you can see which objects need to be removed (red rectangular). The following code already works, but it also removes everything else inside the rectangular. Since I want to keep the other objects, the code needs to be modified. My question is: How can the code be modified, to only erase the scratches and not the other objects?

Subtract=Vergleich-Referenz;
binary=imbinarize(Subtract,0.14);
se=strel('disk',4);
close=imclose(binary,se);
close=imfill(close,'holes');
stats=regionprops('table',close,'BoundingBox','MajorAxisLength','MinorAxisLength','SubarrayIdx','Area','Perimeter','Centroid');
stats.LenWdRatio = stats.MajorAxisLength ./ stats.MinorAxisLength;
thresh = 3; 
stats.isGreater = stats.LenWdRatio < thresh; 

 objRemoveIdx=find(~stats.isGreater); 
        for i = find(~stats.isGreater).'
            close(stats.SubarrayIdx{i,1},stats.SubarrayIdx{i,2}) = false; 
        end


se=strel('disk',3);
open=imopen(close,se);
filter=bwareafilt(open,[10 1000]);
stats.circularity=4*pi*stats.Area./stats.Perimeter.^2;
thresh=0.5;

stats.isBigger = stats.circularity >thresh;
for i = find(~stats.isBigger).'
            filter(stats.SubarrayIdx{i,1},stats.SubarrayIdx{i,2}) = false; 
end

invert=imcomplement(filter);

I would be very thankful for an answer.

Greetings!