//are we within 10 points of the bootstrap cutoff?
- if (divs[k].bsMax >= (minBS-10)) {
+ if ((divs[k].bsMax >= (minBS-10)) && (iters < 1000)) {
snpsLeft = getSNPS(divs[k].parentA.getAligned(), divs[k].querySeq.getAligned(), divs[k].parentB.getAligned(), divs[k].winLStart, divs[k].winLEnd);
snpsRight = getSNPS(divs[k].parentA.getAligned(), divs[k].querySeq.getAligned(), divs[k].parentB.getAligned(), divs[k].winRStart, divs[k].winREnd);