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CVE-2026-31967

HTSlib is a library for reading and writing bioinformatics file formats.

Published Mar 18, 2026 · updated Jun 17, 2026 · htslib htslib

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the function called while reading CRAM records, the value of the mate reference id field was not validated. Later use of this value, for example when converting the data to SAM format, could result in the out of bounds array reads when looking up the corresponding reference name. If the array value obtained also happened to be a valid pointer, it would be interpreted as a string and an attempt would be made to write the data as part of the SAM record. This bug may allow information about program state to be leaked. It may also cause a program crash through an attempt to access invalid memory. Versions 1.23.1, 1.22.2 and 1.21.1 include fixes for this issue. There is no workaround for this issue.

Code

The project this record applies to. Exploit listings stay in References.

Timeline

Detection, updates, and resolution for this record.

  1. Mar 18, 2026 · NIST NVD

    Detected

    HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the function called while reading CRAM records, the value of the mate reference id field was not validated. Later use of this value, for example when converting the data to SAM format, could result in the out of bounds array reads when looking up the cor

  2. Jun 17, 2026 · NIST NVD

    Updated

    HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the function called while reading CRAM records, the value of the mate reference id field was not validated. Later use of this value, for example when converting the data to SAM format, could result in the out of bounds array reads when looking up the cor

Affected

  • cpe htslib/htslibversion unspecified
  • cpe htslib/htslib1.23

Sources

  • CVE.orgVulnerability recordCVE-2026-31967

    Official CVE identifier

    cve.org
  • NIST NVDVulnerability recordCVE-2026-31967

    HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the function called while reading CRAM records, the value of the mate reference id field was not validated. Late

    nvd.nist.gov

References