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Table 2 Comparison of the big gap region among different Thermotoga genomes.

From: A pipeline for completing bacterial genomes using in silicoand wet lab approaches

T. maritima

T. sp. strain RQ2

T. neapolitana

T. sp. strain RQ7

Annotation

TM0968

TRQ2_1822

CTN_1608

Present

hypothetical protein

TM0969

TRQ2_1821

CTN_1607

Present

hypothetical protein

TM0970

Absent

CTN_1606

Disrupted

hypothetical protein

TM0971

TRQ2_1821

Present*

Present

hypothetical protein

TM0972

TRQ2_1820

CTN_1605

Disrupted

conserved hypothetical protein, GGDEF domain

TM0973

TRQ2_1819

CTN_1604

Present

hypothetical protein

TM0974

TRQ2_1818

CTN_1603

Present

hypothetical protein

TM0975

Absent

CTN_1602

Disrupted

hypothetical protein

TM0976

Absent

Present*

Present

hypothetical protein

TM0977

Absent

CTN_1601

Present

hypothetical protein

TM0978

TRQ2_1817

CTN_1600

Present

hypothetical protein

TM0979

TRQ2_1816

CTN_1599

Present

hypothetical protein

TM0980

TRQ2_1815

CTN_1598

Present

hypothetical protein

TM0981

TRQ2_1814

CTN_1597

Disrupted

hypothetical protein

TM0982

TRQ2_1813

CTN_1596

Present

hypothetical protein

TM0983

TRQ2_1812

CTN_1595

Disrupted

hypothetical protein

TM0984

TRQ2_1811

CTN_1594

Disrupted

hypothetical protein

TM0985

TRQ2_1810

CTN_1593

Present

hypothetical protein

TM0986

TRQ2_1809

CTN_1592 &

CTN_1591

Present

hypothetical protein

TM0987

TRQ2_1808

CTN_1590

Disrupted

hypothetical protein

TM0988

TRQ2_1807

CTN_1589

Disrupted

hypothetical protein

TM0989

TRQ2_1806

CTN_1588

Present

hypothetical protein

TM0990

TRQ2_1805

CTN_1587

Disrupted

hypothetical protein

TM0991

TRQ2_1804

CTN_1586

Disrupted

hypothetical protein

TM0992

Absent

CTN_1585

Disrupted

hypothetical protein

TM0993

Absent

CTN_1584

Present

hypothetical protein

TM0994

Absent

CTN_1583

Present

hypothetical protein

TM0995

Absent

CTN_1582

Present

hypothetical protein

TM0996

TRQ2_1803

CTN_1581

Present

hypothetical protein

TM0997

TRQ2_1802

CTN_1580

Disrupted

hypothetical protein

TM0998

TRQ2_1801

CTN_1579

Present

transcriptional regulator, ArsR family

TM0999

Disrupted

Present*

Present

hypothetical protein

TM1000

Absent

CTN_1578

Present

hypothetical protein

TM1001

Absent

CTN_1577

Present

hypothetical protein

TM1002

TRQ2_1800

CTN_1576

Disrupted

hypothetical protein

TM1003

Absent

CTN_1575

Absent

hypothetical protein

TM1004

TRQ2_1800

CTN_1573

Absent

hypothetical protein

  1. Comparative analysis of the ~36 kb big gap region among four Thermotoga genomes, showing the synteny and conservation. This region was missing from the initial assembly of the T. sp. strain RQ7 genome but was included after combining the data from the CLC assembly and the primer walking effort. The asterisks (*) indicate the presence of a homolog that is not annotated as a gene in a particular genome. Absent indicates the complete deletion of the ORF in a particular genome.