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Table 2 Evaluation of differences by PCR and Sanger sequencing

From: Complete genome determination and analysis of Acholeplasma oculi strain 19L, highlighting the loss of basic genetic features in the Acholeplasmataceae

Primer

Sequence 5′- 3′

No. of differences

Position of the conflict

SMRT

SBS

Sanger

Aocu1FS1

ACGCAATTTTGAATGCGAGTC

1

29,164

A

G

G

Aocu1RS1

AAGCGCCACCCATCTTTACA

Aocu2FS2

TCCAAGATCAACCGTTGGAACA

1

45,841

C

T

T

Aocu2RS2

TCTTTGTGCCTCACCACCTG

Aocu3FS3

GGCAGTTGGTACAAGAGCGA

1

94,414

A

C

C

Aocu3RS3

AAATTCCGGTGGTGGTACGG

Aocu45FS4

ACAGTTGATGGAAGCTATGAAGG

2

227,147

A

C

C

Aocu45RS4

ACGGTTGTTGGGAATCATGG

228,403

A

G

G

Aocu6FD5

ACTGCAGCTAATCCAACGGA

1

332,224/5

G

-

-

Aocu6RD5

TTCAAGTGTTCCACGTCGGT

Aocu7FS6

TCAGCATCCGGTTATGCTCC

1

460,047

G

A

A

Aocu7RS6

GTTGGATGCCACTCGAAGGA

Aocu8FS7

TCTTGTCTTGACCACCCCAA

1

584,955

A

G

G

Aocu8RS7

CAGCAAGTGTTTGACTCGCA

Aocu910FS8

AAATCAGTTGCTGCATTAAGAGGT

2

904,938

G

C

S*

Aocu910RS8

ACTGGGAGTATCGATTGCAGG

904,961

C

A

M*

Aocu11FS9

TTAGATAGTGCGGCAAGGGG

1

927,019

G

A

R*

Aocu11RS9

AACGCACCGAATCATTTCGC

Aocu12-FDI10

GTCGATGCGCAAGCATAACC

4

972,742/3

T

-

-

Aocu12-RDI10

TCTAGGAGGAACACCATCACG

974,678/9

--

AG

AG

  

974,999/975,000

--

CT

CT

  

975,166/7

--

AG

AG

Aocu16-22FDI11

TGCTAGCTGACCTTATGGGAC

7

976,093/4

T

-

-

Aocu16-22RDI11

GACGTTTAGGCGAAGTAGTCG

976,419

-

A

A

  

976,451/2

T

-

-

  

976,520/1

G

-

-

  

976,525

-

T

T

  

976,634/5

T

-

-

  

977,480

-

T

T

Aocu23FS12

GCAATACGACCAACCAAGCG

1

1,091,760

T

C

Y*

Aocu23RS12

AATGCGCCAATTCCAAAACG

Aocu24FS13

GACCAACGTTTCTCGCATGG

1

1,410,995

A

G

G

Aocu24RS13

TGACCACTTAGGTAATCGTCGT

Aocu25FS14

AACTTGGTCCATGTGCCTCT

1

1,443,728

A

G

G

Aocu25RS14

ATGAGGCTACCATTACCCGC

Aocu26FS15

ACCTCGATTGTTCCACCAGC

1

1,471,015

C

T

Y*

Aocu26RS15

AAGTGCTCGCTTACGTCTGG

Aocu278FSI16

TTGCTTGGTTAGCTCCTCCC

2

1,576,028

T

A

W*

Aocu278RSI16

TAGGTGTGCGTCCTGAAGGT

1,577,778

-

T

T

  1. Sixteen primer pairs were designed for the PCR and Sanger sequencing of 28 different regions resulting from the SMRT (PacBio) and SBS (Illumina) approaches. Primer pairs, numbers of identified differences, positions in the submitted sequence, SMRT- and SBS-determined sequences in any particular position are provided in addition to the Sanger sequencing results derived from the PCR product. Ambiguous results obtained by Sanger sequencing (*) were interpreted from the sequencing chromatograms.
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BMC Genomics

ISSN: 1471-2164

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