| Element | Missed Instructions | Cov. | Missed Branches | Cov. | Missed | Cxty | Missed | Lines | Missed | Methods |
| Total | 418 of 418 | 0% | 58 of 58 | 0% | 39 | 39 | 116 | 116 | 10 | 10 |
| flipMatchesIfNeeded(Bases, Bases) | 0% | 0% | 8 | 8 | 40 | 40 | 1 | 1 | ||
| makeAlignMatch(int, int, int, int, int, int) | 0% | 0% | 5 | 5 | 14 | 14 | 1 | 1 | ||
| SimpleComparisonData(LinePushBackReader) | 0% | 0% | 5 | 5 | 18 | 18 | 1 | 1 | ||
| setMatches(AlignMatch[]) | 0% | 0% | 4 | 4 | 15 | 15 | 1 | 1 | ||
| checkMatches(Bases, Bases) | 0% | 0% | 6 | 6 | 10 | 10 | 1 | 1 | ||
| setMinMaxScore() | 0% | 0% | 5 | 5 | 10 | 10 | 1 | 1 | ||
| SimpleComparisonData() | 0% | n/a | 1 | 1 | 6 | 6 | 1 | 1 | ||
| getMaximumScore() | 0% | 0% | 2 | 2 | 3 | 3 | 1 | 1 | ||
| getMinimumScore() | 0% | 0% | 2 | 2 | 3 | 3 | 1 | 1 | ||
| getMatches() | 0% | n/a | 1 | 1 | 1 | 1 | 1 | 1 |