ID   FN570746; SV 1; linear; genomic DNA; CON; MAM; 15464 BP.
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AC   FN570746;
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PR   Project:PRJEA31265;
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DT   18-NOV-2009 (Rel. 102, Created)
DT   18-NOV-2009 (Rel. 102, Last updated, Version 1)
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DE   Gorilla gorilla gorilla whole genome shotgun sequence assembly, supercontig
DE   chr16_32697597_15464
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KW   .
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OS   Gorilla gorilla gorilla (western lowland gorilla)
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC   Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae;
OC   Gorilla.
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RN   [1]
RP   1-15464
RA   Rogers A.S.;
RT   ;
RL   Submitted (14-OCT-2009) to the INSDC.
RL   Rogers A.S., Informatics, Wellcome Trust Sanger Institute, Wellcome Trust
RL   Genome Campus, Hinxton, Cambridge, CB10 1HH, UNITED KINGDOM.
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RN   [2]
RA   Durbin R.M., Tyler-Smith C.;
RT   "Gorilla genome";
RL   Unpublished.
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DR   MD5; 9fb51aeb9e845cc16bf0284ef68f6783.
DR   ENA; CABD020000000; SET.
DR   ENA; CABD000000000; SET.
DR   ENA-CON; FR853087.
DR   BioSample; SAMEA2272491.
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CC   Raw data:
CC   - 2.1x WGS capillary sequenced read pairs.
CC   - 35x Solexa sequenced read pairs with insert sizes 150 bp and 450 bp.
CC   All sequence was derived from DNA sampled from a single female
CC   Western Lowland gorilla (Gorilla gorilla gorilla), Kamilah.
CC   
CC   Assembly invvolved several phases, starting with a de novo
CC   assembly of the initial data using the ABySS and Phusion
CC   assemblers. Contigs from this 'seed' assembly were then grown by
CC   assembling and attaching Solexa read pairs from the initial data.
CC   To improve long-range structure, supercontig construction was
CC   guided by placing (where possible) seed contigs in accordance
CC   with their homologous locations on the human genome, breaking
CC   supercontigs wherever a potential break between human and gorilla
CC   was inferred in an alignment of all the Solexa data to human.
CC   
CC   This draft assembly contains all the assembled supercontigs plus a
CC   mitochondrial sequence. Of the assembled supercontigs there are three
CC   types:
CC   1. Placed supercontigs, assembled from seeds (capilliary read contigs)
CC   placed in accordance with human synteny.
CC   These are named e.g. chr1_12345_67890, meaning a supercontig of length
CC   67890 roughly syntenous with a region on human chromosome 1 starting at
CC   12345.
CC   2. Unplaced supercontigs, assembled from seeds which did not place on
CC   human. These are named e.g. unplaced1234_1_5678, meaning a supercontig of
CC   length 5678. There are about 47000 of these.
CC   3. Cut fragments identified as potential initial misassemblies when
CC   stitching together placed contigs. These are named e.g. cut_chr1_12345_678
CC   meaning a fragment of length 678, initially assembled from seeds placed
CC   near to 12345 on human chromosome 1.  The mitochondrial sequence is
CC   derived from a gorilla MT sequence in the trace archive. Polymorphisms
CC   specific to Kamillah were incorporated during a final phase of the
CC   assembly.
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FH   Key             Location/Qualifiers
FH
FT   source          1..15464
FT                   /organism="Gorilla gorilla gorilla"
FT                   /sub_species="gorilla"
FT                   /mol_type="genomic DNA"
FT                   /note="supercontig chr16_32697597_15464"
FT                   /db_xref="taxon:9595"
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CO   join(CABD02136281.1:1..608,gap(12202),CABD02136282.1:1..2654)
//