Correcting One Deletion and One Substitution with a Constant Number of Reads
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| Format: | Preprint |
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2026
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| _version_ | 1866918471082704896 |
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| author | Li, Yuling Sun, Yubo Ge, Gennian |
| author_facet | Li, Yuling Sun, Yubo Ge, Gennian |
| contents | In this paper, we investigate the problem of designing $(n, N; \mathcal{B})$-reconstruction codes for $N\in \{14,11,9,5\}$, where $\mathcal{B}$ is the single-deletion single-substitution ball function that maps a sequence to the set of all sequences obtainable via one deletion and one substitution. Such a code is defined by the requirement that the intersection size of any two distinct single-deletion single-substitution balls is strictly less than the given number of noisy reads $N$. Note that for any $1\le N<N'$, an $(n, N; \mathcal{B})$-reconstruction code is also an $(n, N'; \mathcal{B})$-reconstruction code. It follows that the problem of designing $(n, N; \mathcal{B})$-reconstruction codes with less redundancy becomes more challenging as $N$ decreases, particularly because the problem for $N=1$ already reduces to the coding problem of single-deletion and single-substitution correcting codes. To the best of our knowledge, most existing results focus on the case where $N$ is a linear function of $n$, while only a limited number consider constant $N$. When $N=1$, the best known $(n, 1; \mathcal{B})$-reconstruction codes (single-deletion and single-substitution correcting codes) require $(4+o(1))\log n$ redundant bits. In this work, we show that this redundancy can be reduced to $3\log n+4$ when $N=5$. As $N$ increases further to $9$ and $11$, the redundancy can be improved to $2\log n+12\log\log n+O(1)$ and $\log n +12\log \log n+O(1)$, respectively. Finally, for $N=14$, we provide a reconstruction code with $\log n+3$ bits of redundancy, which is only two bits more than the best known $(n, 18; \mathcal{B})$-reconstruction codes. |
| format | Preprint |
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arxiv_https___arxiv_org_abs_2604_25294 |
| institution | arXiv |
| publishDate | 2026 |
| record_format | arxiv |
| spellingShingle | Correcting One Deletion and One Substitution with a Constant Number of Reads Li, Yuling Sun, Yubo Ge, Gennian Information Theory In this paper, we investigate the problem of designing $(n, N; \mathcal{B})$-reconstruction codes for $N\in \{14,11,9,5\}$, where $\mathcal{B}$ is the single-deletion single-substitution ball function that maps a sequence to the set of all sequences obtainable via one deletion and one substitution. Such a code is defined by the requirement that the intersection size of any two distinct single-deletion single-substitution balls is strictly less than the given number of noisy reads $N$. Note that for any $1\le N<N'$, an $(n, N; \mathcal{B})$-reconstruction code is also an $(n, N'; \mathcal{B})$-reconstruction code. It follows that the problem of designing $(n, N; \mathcal{B})$-reconstruction codes with less redundancy becomes more challenging as $N$ decreases, particularly because the problem for $N=1$ already reduces to the coding problem of single-deletion and single-substitution correcting codes. To the best of our knowledge, most existing results focus on the case where $N$ is a linear function of $n$, while only a limited number consider constant $N$. When $N=1$, the best known $(n, 1; \mathcal{B})$-reconstruction codes (single-deletion and single-substitution correcting codes) require $(4+o(1))\log n$ redundant bits. In this work, we show that this redundancy can be reduced to $3\log n+4$ when $N=5$. As $N$ increases further to $9$ and $11$, the redundancy can be improved to $2\log n+12\log\log n+O(1)$ and $\log n +12\log \log n+O(1)$, respectively. Finally, for $N=14$, we provide a reconstruction code with $\log n+3$ bits of redundancy, which is only two bits more than the best known $(n, 18; \mathcal{B})$-reconstruction codes. |
| title | Correcting One Deletion and One Substitution with a Constant Number of Reads |
| topic | Information Theory |
| url | https://arxiv.org/abs/2604.25294 |