| line |
true |
false |
branch |
|
120
|
4 |
3 |
if exists $param{'-rate'} |
|
152
|
3 |
14 |
unless $self->seq |
|
176
|
4 |
56 |
if (@_) |
|
178
|
0 |
4 |
unless $seq->isa('Bio::PrimarySeqI') |
|
181
|
0 |
4 |
if $seq->alphabet eq 'protein' |
|
183
|
0 |
4 |
if $seq->seq =~ /[^acgt]/ |
|
211
|
0 |
0 |
if (@_) |
|
213
|
0 |
0 |
unless $seq->isa('Bio::PrimarySeqI') |
|
215
|
0 |
0 |
if $seq->alphabet eq 'protein' |
|
217
|
0 |
0 |
if $seq->seq =~ /[^acgt]/ |
|
255
|
5 |
13 |
if (@_) |
|
286
|
1 |
34 |
if $self->identity and $self->get_alignment_identity <= $self->identity |
|
287
|
3 |
31 |
if $self->pam and 100 * $self->get_mutation_counter / $self->{'_seq_length'} >= $self->pam |
|
288
|
1 |
30 |
if $self->mutation_count and $self->get_mutation_counter >= $self->mutation_count |
|
314
|
0 |
35 |
unless $loc |
|
323
|
26 |
9 |
if ($choose < $self->{'_transition'}) { } |
|
|
4 |
5 |
elsif ($choose < $self->{'_first_transversion'}) { } |
|
336
|
0 |
35 |
if $self->verbose > 0 |