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Table 2 Summary of chicken samples used in the study

From: Viral metagenomic analysis of chickens with runting-stunting syndrome in the Republic of Korea

ID05D7207D1113D6213Q45Control
year2005200720132013
speciesBroilerBroilerBroilerBroilerSPF
age (weeks)62344
final diagnosisRSS, IBRSSRSS, IBHRSS, Coccidiosis
morbidity (%)ukuk48.652.5
samplesmall intestinesmall intestineintestinal contentsintestinal contentsintestinal contents
total reads14,893,90017,152,62419,711,84618,325,43818,906,096
No. of sequences18,77757,42942,80620,52660,556
mean length182192176162193
total viral reads226,870162,9171,766,64248,979339,024
bacteriophage7463 (3.3)a2618 (1.6)109,672 (6.2)10,337 (21.1)339,024 (100)
Leviviridae7463193717,2373836270,026
Siphoviridae82,207324871
Myoviridae6035363731
Podoviridae90731185433
unassigned phage6843286993898
Astroviridae128 (0.1)3424 (2.1)1,328,548 (75.2)4208 (8.6)
Picornaviridae214,648 (94.6)39,646 (24.3)207,500 (11.8)18,567 (37.9)
Parvoviridae9563 (5.9)13,793 (0.8)2599 (5.3)
Reoviridae107,666 (66.1)67,458 (3.8)
Caliciviridae19,802 (1.1)7822 (16.0)
Picobirnaviridae16,128 (0.9)5446 (11.1)
Adenoviridae3741 (0.2)
Coronaviridae409 (0.2)
Anelloviridae4222 (1.9)
  1. uk: unknown
  2. RSS Runting-stunting syndrome, IB Infectious bronchitis, IBH Inclusion body hepatitis
  3. aThe percentage of detected virus reads/total virus reads were indicated in the parenthesis