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Table 1 Assembly metrics among Hymenolepis microstoma genome releases

From: Complete representation of a tapeworm genome reveals chromosomes capped by centromeres, necessitating a dual role in segregation and protection

 

v1

v2

v3

Public release

2013

2015

2018

Size (Mb)

141

182

169

Ungapped size (Mb)

138

161

163

Scaffolds (including mitochondrion)

1132

3643

7

N count (size of gaps)

2,484,793

21,388,553

6,486,653

Gaps

3343

3767

85

Scaffold N50 (Mb)

0.539

7.673

25.8

N90 (Mb)

0.082

0.040

17.5

Contigs

4475

7410

92

Contig N50 (Mb)

0.075

0.063

5.81

N90 (Mb)

0.016

0.010

1.21

GC content

36%

36%

36%

Gene models

10,241

12,368

10,139

Transcripts including splice variants

10,283

12,373

11,429

Avg. gene length (bp)

1478

1398

1930

Exons/introns

65,209/54,968

74,137/61,693

90,693/79,262

Avg. exons per transcript

6.3

6.0

7.9

Avg. intron length (bp)

863

851

866

Avg. exon length (bp)

214

233

217

RNA-seq reads mapped to transcriptome

99,295,156

104,204,808

109,485,265

Transcripts with < 10 RNA-seq reads mapping

1116

1513

563

Transcripts with no RNA-seq read mapping

568

707

193

1:1 orthologues with Echinococcus multilocularis

5710

5967

6299 (62%)

1:1 orthologues with Schistosoma mansoni

4403

4539

4801 (47%)