# gbrowse config file for genome maps [GENERAL] description = Drosophila melanogaster r5 header=

Drosophila melanogaster (2008.03)

footer =
For the source code for this browser, see the Generic Model Organism Database Project.
db_adaptor = Bio::DB::GFF db_args = -adaptor lucene -dsn ../databases/drosmel/chrs;genome;sigmk1;siga38;tf0_90_50;tf50_90_50 # tf50_90_90;wig3;wig50 default_name = 2L:1..50000 # examples to show in the introduction examples = 2L 2R 3L 3R 4 X 2LHet 2RHet 3LHet 3RHet XHet YHet U Uextra dmel_mitochondrion_genome 2L:50000..100000 3L:1506000..1556000 plugins = BatchDumper FeatureFastaDumper FastaDumper GFFDumper ProteinDumper aggregators = processed_transcript genemodel processed_transcript3 alignment uploads = 1 # ? need this for Chado segment lookup in Browser.pm _feature_get ... # #reference class = Component #reference class = chromosome ## need options here default features = gene # Web site configuration info; urk FIXME ... installer gbrowse root = gbrowse stylesheet = gbrowse.css buttons = images/buttons js = js tmpimages = tmp # region segment = 100000 # advanced features balloon tips = 0 drag and drop = 1 cache time = 600 # is 1 an hour or a second? # popup balloon configuration # 'balloon' is the default custom balloons = [balloon] images = /gbrowse/images/balloons [balloon375] images = /gbrowse/images/balloons maxWidth = 375 delayTime = 200 # max and default segment sizes for detailed view max segment = 500001 default segment = 50000 # low-res boundary low res = 200000 zoom levels = 100 200 1000 2500 5000 10000 25000 50000 75000 100000 150000 200000 300000 500000 #searchhelp = Search using Chromosome:base_start..end or Gene name/ID. # whether to show the sources popup menu (0=false, 1=true; defaults to true) show sources = 1 #panel property pad_left = 20 pad_right = 30 key_style = between key bgcolor = whitesmoke grid = 0 Sgrid = 1 # put reversed features on same track or below ? mix_strand = 1 # # where to link to when user clicks in detailed view link = AUTO title = sub { my $f= shift; my $loc= $f->seq_id .':'.$f->start."..".$f->end; my $ftype= ($f->can("method")) ? $f->method : $f->type; if ($ftype =~ /^match/) { $ftype= $f->source(); } $ftype =~ s/processed_transcript/tr/; my ($nm,$id); if($f->can("attributes")) { ($nm)= grep( /^\w/, $f->attributes('Name'), $f->attributes('Alias'), $f->attributes('symbol'), $f->attributes('name'), $f->attributes('ID'), $f->name); ($id)= ($f->attributes('ID'),$f->attributes('Parent'),$f->display_name()); # add Parent } else { $nm= $f->display_name(); } if($id && $nm !~ /$id/){ $nm.=" ($id)";} if($f->can("score")) { my $sc= $f->score; if($sc=~/\d/){ $sc=int($sc) if($sc>1); $nm .= " p=$sc";} } return "$ftype:$nm $loc"; } # colors of the overview, detailed map and key overview units = M overview bgcolor = whitesmoke detailed bgcolor = lightgoldenrodyellow key bgcolor = beige # "automatic" classes to try when an unqualified identifier is given #automatic classes = match automatic classes = gene mRNA language = en default width = 800 # Various places where you can insert your own HTML -- see configuration docs #html2 = #html3 = #html4 = #html5 = #html6 = # Advanced feature: an example of callback to be run remotely # by gbrowse_details for AJAX/iframe balloons # [TOOLTIPS] # NOTintro = sub { # my $args = shift; # my $feat = $args->{feature}; # #my $name = $feat->display_name; # my($name)= ( $feat->attributes('Name'), $feat->display_name()); # my $type = $feat->primary_tag; # # my $class = $feat->class; # my $class = $feat->source; # my $extra = join(' ',$feat->each_tag_value('Note')) if $feat->has_tag('Note'); # my $n = $type =~ /^[AEIOU]/i ? 'n' : ''; # my $msg = "Hello, I am $name, a$n $type from $class"; # $msg .= "
Note: $extra
" if $extra; # #my $seq = substr $feat->seq->seq, 0, 400; # #$seq =~ s/(\S{50})/$1\n/g; # return "" . # "
$name
$msg
"; # # "First 400 bp (click on $type $name for the full sequence):". # # "
>$name\n$seq
"; # } # full_sequence = sub { # my $args = shift; # my $feat = $args->{feature}; # my $name = $feat->display_name; # my $seq = $feat->seq->seq; # $seq =~ s/(\S{75})/$1\n/g; # return "
>$name\n$seq
"; # } ### TRACK CONFIGURATION #### # the remainder of the sections configure individual tracks [BatchDumper:plugin] fileformat = embl [GFFDumper:plugin] version = 3 [ProteinDumper:plugin] fileformat = embl [TRACK DEFAULTS] glyph = generic height = 6 ## dont show many labels ... label density = 10 bump density = 50 overview label density = 160 # dont balloon on every track, just ones with interesting parts #balloon hover = $name $type at $ref:$start..$end #balloon hover = $name is a $type at $ref spanning $start to $end balloon hover = 0 # NOT.balloon hover = sub { # my $f= shift; # my $loc= $f->seq_id .': '.$f->start." .. ".$f->end; # my($name)= ($f->display_name()); # $f->attributes('Name'), # my $type = $f->primary_tag; # my $class = $f->source; # my $n = $type =~ /^[AEIOU]/i ? 'n' : ''; # my $msg = "$name, a$n $type.$class at $loc"; # return $msg; # } ######## GENE MODELS ################# ## need fix mRNA Parent = geneID; not in flybase gff dang em [gene] #feature = gene #glyph = transcript2 feature = genemodel:FlyBase glyph = gene3 bgcolor = steelblue fgcolor = black thin_utr = 1 #fontcolor = sub { # my $feature = shift; # my $glyph = $_[-1]; # return 'black' if $glyph->level == 0; # return 'gray'; # } #font2color = orange label_transcripts = 1 label density = 50 #bump density = 150 #description = sub { # my $self = shift; # return join ' ',$self->attributes('Alias'); # } key = Gene Model category = Genome features label = sub { my $f= shift; my ($nm,$id); ($nm)= grep( /^\w/, $f->attributes('Name'), $f->attributes('Alias'), $f->attributes('symbol'), $f->attributes('name'), $f->attributes('ID'), $f->name); #($id)= ($f->attributes('ID'),$f->attributes('Parent'),$f->display_name()); # add Parent $id= $f->display_name(); $nm=~s/\-(cds)$|\:\d+$//g; $id=~s/^CDS_//; $id=~s/:\d+$//; if($id && $nm !~ /$id/){ $nm.=" ($id)";} return $nm; } [trs] feature = processed_transcript3:FlyBase glyph = processed_transcript bgcolor = seagreen thin_utr = 1 label density = 50 key = Transcript category = Genome features offlabel=0 [tRNA] feature = tRNA bgcolor = white fgcolor = black curatedexon = slateblue fontcolor = slateblue height = 3 key = tRNAs category = Genome features [noncodingRNA] feature = ncRNA snoRNA snRNA miscRNA glyph = generic bgcolor = peachpuff height = 4 stranded = 1 key = Various non coding RNAs category = Genome features [transposable] feature = transposable_element bgcolor = magenta fgcolor = magenta label = sub { my $f = shift; my @n = ($f->attributes('Name'), $f->attributes('Alias')); return $n[0] || $f->display_name; } glyph = anchored_arrow key = Natural transposon citation = Natural transposon (annotation DB ; Chado) category = Genome features #------------- EST / cDNA ----------------------- [wig1] ## need dang selector for each expt group: source * field ... #feature = microarray_oligo feature = microarray_oligo:siga38_558 microarray_oligo:siga38_559 microarray_oligo:siga38_560 microarray_oligo:siga38_561 microarray_oligo:siga38_562 microarray_oligo:siga38_563 microarray_oligo:siga38_564 microarray_oligo:siga38_565 microarray_oligo:siga38_566 microarray_oligo:siga38_567 microarray_oligo:siga38_568 microarray_oligo:siga38_569 microarray_oligo:siga38_570 microarray_oligo:siga38_571 microarray_oligo:siga38_572 glyph = wiggle_density height = 8 bgcolor = black key = Affy 38bp Signal (bw0) citation = transcriptome.affymetrix.com/ modENCODE/38bp-arrays/signal-graphs/ category = modENCODE min_score = 0.01 max_score = 10 link = 0 [mksall] feature = microarray_oligo:manak_1 microarray_oligo:manak_10 microarray_oligo:manak_11 microarray_oligo:manak_12 microarray_oligo:manak_2 microarray_oligo:manak_3 microarray_oligo:manak_4 microarray_oligo:manak_5 microarray_oligo:manak_6 microarray_oligo:manak_7 microarray_oligo:manak_8 microarray_oligo:manak_9 glyph = wiggle_density key = Manak_et_al Signal category = modENCODE citation = transcriptome.affymetrix.com Manak_et_al/ signal-graphs/ bgcolor = black min_score = 0.01 max_score = 8 height = 8 link = 0 [tf0_90_50] # feature = transcribed_region.tf0_90_50_* feature = transcribed_region:tf_0_90_50_558 transcribed_region:tf_0_90_50_559 transcribed_region:tf_0_90_50_560 transcribed_region:tf_0_90_50_561 transcribed_region:tf_0_90_50_562 transcribed_region:tf_0_90_50_563 transcribed_region:tf_0_90_50_564 transcribed_region:tf_0_90_50_565 transcribed_region:tf_0_90_50_566 transcribed_region:tf_0_90_50_567 transcribed_region:tf_0_90_50_568 transcribed_region:tf_0_90_50_569 transcribed_region:tf_0_90_50_570 transcribed_region:tf_0_90_50_571 transcribed_region:tf_0_90_50_572 glyph = segments bgcolor = lightgray key = Transfrags 0_90_50 category = modENCODE citation = bw0 gap90 run50, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightgray fgcolor = darkgray bump density = 9950 height = 3 [tf50_90_90] feature = transcribed_region:tf_50_90_90_558 transcribed_region:tf_50_90_90_559 transcribed_region:tf_50_90_90_560 transcribed_region:tf_50_90_90_561 transcribed_region:tf_50_90_90_562 transcribed_region:tf_50_90_90_563 transcribed_region:tf_50_90_90_564 transcribed_region:tf_50_90_90_565 transcribed_region:tf_50_90_90_566 transcribed_region:tf_50_90_90_567 transcribed_region:tf_50_90_90_568 transcribed_region:tf_50_90_90_569 transcribed_region:tf_50_90_90_570 transcribed_region:tf_50_90_90_571 transcribed_region:tf_50_90_90_572 #feature = transcribed_region.tf50_90_90_* glyph = segments key = Transfrags 50_90_90 category = modENCODE citation = bw50 gap90 run90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightgray fgcolor = darkgray bump density = 9950 height = 3 [tf_50_90_50] feature = transcribed_region:tf_50_90_50_558 transcribed_region:tf_50_90_50_559 transcribed_region:tf_50_90_50_560 transcribed_region:tf_50_90_50_561 transcribed_region:tf_50_90_50_562 transcribed_region:tf_50_90_50_563 transcribed_region:tf_50_90_50_564 transcribed_region:tf_50_90_50_565 transcribed_region:tf_50_90_50_566 transcribed_region:tf_50_90_50_567 transcribed_region:tf_50_90_50_568 transcribed_region:tf_50_90_50_569 transcribed_region:tf_50_90_50_570 transcribed_region:tf_50_90_50_571 transcribed_region:tf_50_90_50_572 glyph = segments key = Transfrags 50_90_50 category = modENCODE citation = tf_50_90_50 transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightgray fgcolor = darkgray bump density = 9950 height = 3 #[wigd5] #feature = oligo50 #glyph = wiggle_density #height = 8 #bgcolor = black #key = Affy 38bp Signal (bw50) #citation = transcriptome.affymetrix.com/ modENCODE/38bp-arrays/signal-graphs/ #category = modENCODE #min_score = 0.01 #max_score = 12 #------------- PROTEIN MATCHES ----------------------- # [hsgDM] # feature = alignment:modDM # glyph = merged_alignment # bins = 0-50 50-100 100-200 200-9000 # bincolors = lightslategray powderblue cornflowerblue blue # label density = 0 # bump = 0 # stranded = 1 # height = 5 # category = Protein_Analysis # key = Fruitfly genes # label = sub { my $f = shift; # my($na)= ( $f->attributes('Parent'), $f->display_name()); # my($nn)= ( $f->attributes('Name')); if($nn && $na !~ /$nn/){$na="$nn ($na)";} # return $na; # } # ------------ MISC -------------------------------- [oligo] feature = oligonucleotide glyph = generic bgcolor = tomato fgcolor = tomato height = 4 bump = 0 bump density = 1 label = 0 label density = 0 key = Affy Oligo citation = oligonucleotide (annotation DB ; Chado) category = Genome features [pcr] feature = pcr_product glyph = generic bgcolor = orange height = 4 bump = 0 bump density = 1 label = 0 label density = 0 key = pcr_product citation = pcr_product (annotation DB ; Chado) category = Genome features [tinsert] feature = transposable_element_insertion_site glyph = pinsertion bgcolor = darkturquoise fgcolor = darkturquoise bump = 1 label = 0 key = Transgene insertion site citation = Transgene insertion site (annotation DB ; Chado) category = Genome features [repeat_region] feature = repeat_region # glyph = extending_arrow bgcolor = darkorchid fgcolor = darkorchid height = 3 connector = solid bump = 1 strand_arrow = 0 label = 0 label density = 0 key = Repeat region citation = repeat_region (annotation DB ; Chado) category = Genome features [dna] glyph = dna global feature = 1 height = 40 do_gc = 1 fgcolor = red axis_color = blue nodump = 1 balloon hover = 0 category = Genome features key = DNA/GC Content [chromosome_band] feature = chromosome_band glyph = generic bgcolor = blue fgcolor = blue height = 4 key = chromosome_band category = Genome features # zcat $dmg/dmel-all-no-analysis-nofasta-r5.5.gff.gz | perl -ne'next unless(/^\w/); ($r,$s,$t)=split; print "$t\t$s\n";' | sort | uniq -c | sort -k1,1nr | more ##### Component.reference == chromosome_arm ##sequence-region dmel_mitochondrion_genome 1 19517 ##sequence-region 2RHet 1 3288761 ##sequence-region 2L -204333 23011544 ##sequence-region X 1 22422827 ##sequence-region 3L -299458 24543557 ##sequence-region XHet 1 204112 ##sequence-region Uextra 1 29004656 ##sequence-region 4 1 1351857 ##sequence-region YHet 1 347038 ##sequence-region U 1 10049037 ##sequence-region 2LHet 1 368872 ##sequence-region 2R 1 21146708 ##sequence-region 3LHet 1 2555491 ##sequence-region 3R -224036 27905053 ##sequence-region 3RHet 1 2517507 # 241819 oligonucleotide Drosophila_2 # 120247 orthologous_to FlyBase # 70523 CDS FlyBase # 68670 exon FlyBase # 54786 intron FlyBase # 42045 transposable_element_insertion_site FlyBase # 32644 pcr_product DRSC # 20924 mRNA FlyBase # 20924 protein FlyBase # 20527 pcr_product HFAAmplicon # 20239 five_prime_UTR FlyBase # 15186 gene FlyBase # 14696 three_prime_UTR FlyBase # 14210 pcr_product BKNAmplicon # 14095 pcr_product DGRC_1 # 12765 oligonucleotide DGRC_2 # 10341 orthologous_region tblastn_Dmel_r3.1 # 9409 repeat_region DHGP # 5771 chromosome_band FlyBase # 5385 transposable_element FlyBase # 2804 point_mutation FlyBase # 1396 protein_binding_site FlyBase # 978 syntenic_region FlyBase # 973 BAC_cloned_genomic_insert FlyBase # 580 tandem_repeat DHGP # 563 rescue_fragment FlyBase # 314 tRNA FlyBase # 249 snoRNA FlyBase # 240 regulatory_region FlyBase # 225 deletion FlyBase # 204 sequence_variant FlyBase # 193 aberration_junction FlyBase # 170 transposable_element DHGP # 161 rRNA FlyBase # 105 ncRNA FlyBase # 98 polyA_site FlyBase # 94 pseudogene FlyBase # 90 miRNA FlyBase # 48 insertion_site FlyBase # 47 snRNA FlyBase # 40 transposable_element_target_site_duplication FlyBase # 22 enhancer FlyBase # 17 uncharacterized_change_in_nucleotide_sequence FlyBase # 7 mature_peptide FlyBase # 1 DNA_motif FlyBase #........................ [tf558] feature = transcribed_region:tf_50_90_90_558 glyph = segments key = Transfrag:Dro2_AS_CME-L1 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A558%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf559] feature = transcribed_region:tf_50_90_90_559 glyph = segments key = Transfrag:Dro2_AS_Sg4 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A559%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf560] feature = transcribed_region:tf_50_90_90_560 glyph = segments key = Transfrag:Dro2_AS_ML-DmD11 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A560%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf561] feature = transcribed_region:tf_50_90_90_561 glyph = segments key = Transfrag:Dro2_AS_ML-DmD20c2 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A561%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf562] feature = transcribed_region:tf_50_90_90_562 glyph = segments key = Transfrag:Dro2_AS_ML-DmD20c5 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A562%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf563] feature = transcribed_region:tf_50_90_90_563 glyph = segments key = Transfrag:Dro2_AS_Kc167 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A563%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf564] feature = transcribed_region:tf_50_90_90_564 glyph = segments key = Transfrag:Dro2_AS_GM2 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A564%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf565] feature = transcribed_region:tf_50_90_90_565 glyph = segments key = Transfrag:Dro2_AS_S2-DRSC category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A565%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf566] feature = transcribed_region:tf_50_90_90_566 glyph = segments key = Transfrag:Dro2_AS_S2R%2B category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A566%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf567] feature = transcribed_region:tf_50_90_90_567 glyph = segments key = Transfrag:Dro2_AS_S1 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A567%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf568] feature = transcribed_region:tf_50_90_90_568 glyph = segments key = Transfrag:Dro2_AS_1182-4H category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A568%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf569] feature = transcribed_region:tf_50_90_90_569 glyph = segments key = Transfrag:Dro2_AS_ML-DmD16c3 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A569%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf570] feature = transcribed_region:tf_50_90_90_570 glyph = segments key = Transfrag:Dro2_AS_ML-DmD32 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A570%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf571] feature = transcribed_region:tf_50_90_90_571 glyph = segments key = Transfrag:Dro2_AS_ML-DmD17c3 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A571%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 [tf572] feature = transcribed_region:tf_50_90_90_572 glyph = segments key = Transfrag:Dro2_AS_ML-DmD8 category = modENCODE.Transfrag citation = transfrag.bed%2Cid%3A572%2Cbw%3A50%2Cmaxgap%3A90%2Cminrun%3A90, transcriptome.affymetrix.com modENCODE/38bp-arrays/transfrags/ bgcolor = lightblue height = 4 #---- [mks1] feature = microarray_oligo:manak_1 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_1_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A1%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks10] feature = microarray_oligo:manak_10 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_10_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A10%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks11] feature = microarray_oligo:manak_11 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_11_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A11%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks12] feature = microarray_oligo:manak_12 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_12_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A12%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks2] feature = microarray_oligo:manak_2 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_2_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A2%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks3] feature = microarray_oligo:manak_3 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_3_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A3%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks4] feature = microarray_oligo:manak_4 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_4_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A4%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks5] feature = microarray_oligo:manak_5 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_5_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A5%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks6] feature = microarray_oligo:manak_6 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_6_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A6%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks7] feature = microarray_oligo:manak_7 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_7_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A7%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks8] feature = microarray_oligo:manak_8 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_8_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A8%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [mks9] feature = microarray_oligo:manak_9 glyph = wiggle_xyplot key = Signal:Dro_Total_AS_9_B1 category = Manak_et_al.Signal citation = signal.gr%2Cid%3A9%2Cbw%3A50%2Clog%3A1, transcriptome.affymetrix.com Manak_et_al/Manak_et_al/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 #.............. [xy558] feature = microarray_oligo:siga38_558 glyph = wiggle_xyplot key = Signal:Dro2_AS_CME-L1 category = modENCODE.Signal citation = signal.gr%2Cid%3A558%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy559] feature = microarray_oligo:siga38_559 glyph = wiggle_xyplot key = Signal:Dro2_AS_Sg4 category = modENCODE.Signal citation = signal.gr%2Cid%3A559%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy560] feature = microarray_oligo:siga38_560 glyph = wiggle_xyplot key = Signal:Dro2_AS_ML-DmD11 category = modENCODE.Signal citation = signal.gr%2Cid%3A560%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy561] feature = microarray_oligo:siga38_561 glyph = wiggle_xyplot key = Signal:Dro2_AS_ML-DmD20c2 category = modENCODE.Signal citation = signal.gr%2Cid%3A561%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy562] feature = microarray_oligo:siga38_562 glyph = wiggle_xyplot key = Signal:Dro2_AS_ML-DmD20c5 category = modENCODE.Signal citation = signal.gr%2Cid%3A562%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy563] feature = microarray_oligo:siga38_563 glyph = wiggle_xyplot key = Signal:Dro2_AS_Kc167 category = modENCODE.Signal citation = signal.gr%2Cid%3A563%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy564] feature = microarray_oligo:siga38_564 glyph = wiggle_xyplot key = Signal:Dro2_AS_GM2 category = modENCODE.Signal citation = signal.gr%2Cid%3A564%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy565] feature = microarray_oligo:siga38_565 glyph = wiggle_xyplot key = Signal:Dro2_AS_S2-DRSC category = modENCODE.Signal citation = signal.gr%2Cid%3A565%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy566] feature = microarray_oligo:siga38_566 glyph = wiggle_xyplot key = Signal:Dro2_AS_S2R%2B category = modENCODE.Signal citation = signal.gr%2Cid%3A566%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy567] feature = microarray_oligo:siga38_567 glyph = wiggle_xyplot key = Signal:Dro2_AS_S1 category = modENCODE.Signal citation = signal.gr%2Cid%3A567%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy568] feature = microarray_oligo:siga38_568 glyph = wiggle_xyplot key = Signal:Dro2_AS_1182-4H category = modENCODE.Signal citation = signal.gr%2Cid%3A568%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy569] feature = microarray_oligo:siga38_569 glyph = wiggle_xyplot key = Signal:Dro2_AS_ML-DmD16c3 category = modENCODE.Signal citation = signal.gr%2Cid%3A569%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy570] feature = microarray_oligo:siga38_570 glyph = wiggle_xyplot key = Signal:Dro2_AS_ML-DmD32 category = modENCODE.Signal citation = signal.gr%2Cid%3A570%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy571] feature = microarray_oligo:siga38_571 glyph = wiggle_xyplot key = Signal:Dro2_AS_ML-DmD17c3 category = modENCODE.Signal citation = signal.gr%2Cid%3A571%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0 [xy572] feature = microarray_oligo:siga38_572 glyph = wiggle_xyplot key = Signal:Dro2_AS_ML-DmD8 category = modENCODE.Signal citation = signal.gr%2Cid%3A572%2Cbw%3A0%2Clog%3A1, transcriptome.affymetrix.com modENCODE/38bp-arrays/signal-graphs/ #min_score = 0.01 #max_score = 12 clip = 1 scale = none bgcolor = plum fgcolor = plum height = 8 link = 0