| line |
true |
false |
branch |
|
145
|
29 |
2 |
if $start |
|
146
|
29 |
2 |
if $end |
|
147
|
20 |
11 |
if $length |
|
148
|
0 |
31 |
if $strand |
|
149
|
0 |
31 |
if $primary |
|
150
|
0 |
31 |
if $source |
|
151
|
0 |
31 |
if $frame |
|
152
|
0 |
31 |
if $score |
|
153
|
0 |
31 |
if $gff_string |
|
155
|
0 |
31 |
if $allele_ori |
|
156
|
0 |
31 |
if $allele_mut |
|
157
|
17 |
14 |
if $upstreamseq |
|
158
|
17 |
14 |
if $dnstreamseq |
|
160
|
0 |
31 |
if $label |
|
161
|
0 |
31 |
if $status |
|
162
|
17 |
14 |
if $proof |
|
163
|
0 |
31 |
if $region |
|
164
|
0 |
31 |
if $region_value |
|
165
|
0 |
31 |
if $region_dist |
|
166
|
0 |
31 |
if $numbering |
|
167
|
18 |
13 |
if $mut_number |
|
168
|
8 |
23 |
if $ismutation |
|
170
|
0 |
31 |
if $cpg |
|
192
|
0 |
19 |
if (defined $value) { } |
|
|
0 |
19 |
elsif (not defined $obj->{'label'}) { } |
|
193
|
0 |
0 |
$value ? : |
|
208
|
0 |
0 |
if ($self->allele_ori eq $self->allele_mut and length $self->allele_ori == 1) { } |
|
215
|
0 |
0 |
if ($self->allele_ori eq 'c' and substr($self->upStreamSeq, 0, 1) eq 'g' or $self->allele_ori eq 'g' and substr($self->dnStreamSeq, -1, 1) eq 'c') { } |
|
243
|
21 |
0 |
if (defined $value) |
|
244
|
0 |
21 |
if (not $value->isa('Bio::Variation::RNAChange')) { } |
|
252
|
0 |
21 |
if (not exists $self->{'RNAChange'}) { } |
|
283
|
78 |
12 |
if $self->allele_ori and $self->allele_ori->seq |
|
284
|
78 |
12 |
if $self->allele_mut and $self->allele_mut->seq |
|
286
|
0 |
90 |
if (not $o || $m) { } |
|
|
60 |
30 |
elsif ($o and $m and length $o == length $m and length $o == 1) { } |
|
|
12 |
18 |
elsif (not $o) { } |
|
|
12 |
6 |
elsif (not $m) { } |
|
317
|
0 |
60 |
if ($o eq $m) { } |
|
|
31 |
29 |
elsif ($transition{$o} eq $m) { } |
|
347
|
0 |
17 |
if (defined $value) { } |
|
350
|
0 |
17 |
unless defined $self->start |
|
356
|
17 |
0 |
if ($self->SeqDiff) |
|
357
|
4 |
13 |
if ($self->SeqDiff and $self->SeqDiff->alphabet and $self->SeqDiff->alphabet eq 'dna') { } |
|
|
13 |
0 |
elsif ($self->SeqDiff->alphabet and $self->SeqDiff->alphabet eq 'rna') { } |
|
365
|
15 |
2 |
if ($self->isMutation) { } |
|
371
|
2 |
15 |
if $self->start < 1 |
|
378
|
2 |
15 |
if $self->label =~ /deletion/ |
|
379
|
2 |
15 |
if $self->label =~ /insertion/ |
|
380
|
15 |
2 |
if $self->allele_ori->seq |
|
387
|
14 |
4 |
if $self->label =~ /point/ or $self->label =~ /complex/ |
|
388
|
16 |
2 |
if $self->allele_mut->seq |