Sequence mutations of APC in the tumors from B6 Apc
Min/+ mice. Top: the bases and their quality score in parenthesis, e.g. T(46), are the outputs from the base-call program phred for the base 2549 of the mouse APC gene. The three bases next to each sample (e.g., 8762-1N), ordered by their quality score or base-call accuracy (the base call error rate equals to 10-quality score; thus a higher score means a more accurate base call), are from three separate sequences generated for the sample. Tumors 1-4 and their matching normal tissue samples were from mouse ID 8762, whereas tumor 5 and its matching normal sample were from mouse ID 8791 (thus, 8762-1N and 8762-1T are paired normal/tumor samples, and so on). Middle and bottom: The first sequence alignment is for bases 2493-2552 of mouse APC. Using the most accurate base (i.e., having the highest quality score) for base 2549 as indicated above, tumors 3-5 have a T- > A mutation (in red/green color) creating a premature stop codon. The remaining two tumors (8762-1T and 8762-2T) have a "GG" insertion at base 6448 of APC, as shown in the second sequence alignment which is for bases 6393-6450 of mouse APC. "Consensus" stands for the corresponding sequence obtained from the published mouse genome.