| line |
true |
false |
branch |
|
65
|
600 |
153 |
if $self->seq =~ /$Bio::MUST::Core::Seq::PROTLIKE/msx
|
|
72
|
2 |
9 |
if $self->seq =~ /$Bio::MUST::Core::Seq::RNALIKE/ and not $self->is_protein
|
|
79
|
196 |
8403 |
if $self->seq =~ /$Bio::MUST::Core::Seq::GAP/msx
|
|
89
|
18 |
18 |
$seq2->isa('Bio::MUST::Core::Seq') ? :
|
|
91
|
20 |
16 |
if $seq2 =~ /$self/imsx
|
|
101
|
18 |
18 |
$seq2->isa('Bio::MUST::Core::Seq') ? :
|
|
103
|
20 |
16 |
if $self =~ /$seq2/imsx
|
|
206
|
173 |
8 |
if ($self->is_protein) { }
|
|
207
|
10 |
163 |
if ($char eq '*') { }
|
|
|
163 |
0 |
elsif ($char eq 'X') { }
|
|
218
|
4 |
4 |
if ($char eq '*') { }
|
|
|
4 |
0 |
elsif ($char eq 'X') { }
|
|
305
|
2 |
38 |
if $state =~ /$Bio::MUST::Core::Seq::PROTMISS/
|
|
306
|
1 |
37 |
if $state =~ /$Bio::MUST::Core::Seq::DNAMISS/ and not $self->is_protein
|
|
315
|
30 |
109 |
if $self->state_at($site) =~ /$Bio::MUST::Core::Seq::GAP/
|
|
339
|
297 |
64 |
$self->is_protein ? :
|
|
400
|
0 |
113 |
$chunk < 0 ? :
|
|
402
|
0 |
113 |
if $nowrap
|