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Table 1 ICDSs shown by resequencing to correspond to sequencing errors in M. smegmatis mc2155

From: Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?

ICDS number

5' position

ORF number

Putative function

Functional classification

Accession number

Type of event

0012

1639371

1547

Hypothetical

Unknown

DQ866846

U

0019

1918521

1842-1843

Adenosylhomocysteinase

Intermediary metabolism

DQ866847

U

0022

1930746

1854-1855

Sodium/proton antiporter

Cell wall, process

DQ866848

U

0024

2055797

1975-1976

Methane/phenol/toluene hydroxylase

Intermediary metabolism

DQ866849

O

0026

2119141

2042

Conserved hypothetical

Unknown

DQ866850

O

0027

2162020

2086-2087

Ferredoxin-NADP reductase

Intermediary metabolism

DQ866851

O

0028

2221312

2149-2150

Hypothetical

Unknown

DQ866852

U

0030

2290855

2215-2216

CoA-transferase

Intermediary metabolism

DQ866853

O

0035

2799279

2732-2733

Conserved hypothetical

Unknown

DQ866854

U

0039

3216877

3151

Aconitate hydratase

Intermediary metabolism

DQ866855

O (× 2)

0040

3262835

3192-3193

Maltooligosyltrehalose synthase

Intermediary metabolism

DQ866856

U

0041

3313327

3240

ABC transporter (CydC)

Intermediary metabolism

DQ866857

O

0051

3902349

3837

Dephospho-CoA kinase

Intermediary metabolism

DQ866858

O (× 2)

0053

3961899

3892-3893

Transcriptional regulator

Regulation

DQ866859

O

0054

4017126

3952-3953

Hypothetical

Unknown

DQ866860

O

0057

4255762

4183

Pyruvate dehydrogenase

Intermediary metabolism

DQ866861

U

0058

4288648

4211-4212

Nitrate reductase

Intermediary metabolism

DQ866862

U

0061

4637174

4539-4540

Oxidoreductase

Intermediary metabolism

DQ866863

O

0072

5644787

5533-5534

Hypothetical

Unknown

DQ866864

U

0073

5855980

5754

Acetyltransferase

Intermediary metabolism

DQ866865

O

0076

6078397

5970-5971

Fatty-acid CoA synthetase

Lipid metabolism

DQ866866

U

0080

6600510

6504-6505

Conserved hypothetical

Unknown

DQ866867

U

0082

6670969

6579

Helicase

DNA metabolism

DQ866868

O

0083

6673489

6581

Hypothetical

Unknown

DQ866869

U

0089

342400

*

Methyltransferase

Intermediary metabolism

DQ866870

U

0091

601272

0511-0512

Hypothetical

Unknown

DQ866871

U

0092

809979

0716-0717

Transcriptional regulator

Regulation

DQ866872

U

0093

428949

1395-1396

Elongation factor G

Translation

DQ866873

O

  1. The nucleotide position, the affected ORF (according to the TIGR website), its putative function computed after the correction of the sequencing errors, its functional classification and its accession number are indicated for each ICDS. The asterisk indicates an ORF not predicted by TIGR. Two types of error were observed: overcall (O), an extra nucleotide not present in the target sequence was initially predicted at a given position; and undercall (U), a nucleotide corresponding to a true target sequence was not predicted at a given position.
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Genome Biology

ISSN: 1474-760X

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