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Align x

Manufactured by Thermo Fisher Scientific
Sourced in United States

The Align X is a laboratory equipment product designed for the alignment and positioning of various experimental setups. It offers precise control and adjustment capabilities to ensure accurate alignment of components in a research or testing environment.

Automatically generated - may contain errors

5 protocols using align x

1

Sequence Alignment of Aptamers

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Example 4

Alignment of SEQ ID NO 1 to SEQ ID NO 100 is performed using the software Align X, a component of Vector NTI Advanced 11.5.4 by Invitrogen. Several groups of sequences have at least 90%, at least 70%, or at least 50% nucleotide sequence identity as illustrated in the alignments of FIGS. 9, 10, and 11. In these alignments, only the central variable region of the aptamers is included for simplicity. Thus, oligonucleotides with at least 50%, at least 70%, or at least 90% nucleotide sequence identity to sequences selected from the group consisting of SEQ ID NO 1 to SEQ ID NO 100 are included and may be part of the current invention.

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2

Nucleotide Sequence Alignment of Aptamers

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Example 16

Alignment of SEQ ID NO 1 to SEQ ID NO 400 was performed using the software Align X, a component of Vector NTI Advanced 11.5.4 by Invitrogen. Several groups of sequences have at least 90%, at least 70%, or at least 50% nucleotide sequence identity as illustrated in the alignments of FIGS. 5, 6, and 7. In these alignments, only the central variable region of the aptamers was included for simplicity. Thus, oligonucleotides with at least 50%, at least 70%, or at least 90% nucleotide sequence identity to sequences selected from the group consisting of SEQ ID NO 1 to SEQ ID NO 400 are included as part of the current invention. FIG. 5 shows the alignment of exemplary sequences with at least 90% nucleotide sequence identity that are identified during the selection process. FIG. 6 shows the alignment of exemplary sequences with at least 70% nucleotide sequence identity that are identified during the selection process. FIG. 7 shows the alignment of exemplary sequences with at least 50% nucleotide sequence identity that are identified during the selection process.

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3

Sequencing and Analysis of PCR Products

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Twenty microliters of PCR products were sent to the Beijing Genomics Institute (BGI) for sequencing. The sequencing was conducted in both directions (forward and reverse), and then analyzed by Align X (Invitrogen, Carlsbad, CA, USA) and Chromas (Technelysium Pty Ltd., Queensland, Australia) softwares.
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4

Sequence Alignment and Identity Analysis

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Example 3

Alignment of SEQ ID NO: 1 to SEQ ID NO: 100 was performed using the software Align X, a component of Vector NTI Advanced 11.5.4 by Invitrogen. Several groups of sequences have at least 90%, at least 70%, or at least 50% nucleotide sequence identity as illustrated in the alignments of FIGS. 13, 14, and 15. In these alignments, only the central variable region of the aptamers was included for simplicity. Thus, oligonucleotides with at least 50%, at least 70%, or at least 90% nucleotide sequence identity to sequences selected from the group consisting of SEQ ID NO: 1 to SEQ ID NO: 200 are included as part of the current invention.

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5

Genome and Protein Sequence Analyses

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Reference strains genome were downloaded from LGC website (www.lgcstandards-atcc.org), database homology searches of proteins were carried out using tBLASTn and BLASTp (https://blast.ncbi.nlm.nih.gov/Blast.cgi) software and amino acidic sequences alignments were performed by AlignX (Invitrogen, Carlsbad, USA) using E. coli K12 MG1655 as consensus sequence.
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