CVE-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 `cram_decode_slice()` 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.

• CWE-125
• CWE-129

• https://github.com/samtools/htslib/commit/9cefb46453ad471e933b8212d4f45920524d3357Patch
• https://github.com/samtools/htslib/security/advisories/GHSA-33x5-c6vj-8f2wPatch, Vendor Advisory

Published

Mar 18, 2026

Last Modified

Jun 17, 2026

Status

Analyzed

• How Strix found a critical auth bypass in etcdStrix autonomously discovered a critical authentication bypass in etcd, later designated CVE-2026-33413.
• Autonomous PentestingAI agents that find and validate exploitable vulnerabilities like this one across your applications.
• PR ReviewsPentest every pull request so vulnerable code is caught before it ships to production.
• AI Penetration TestingHow AI-driven penetration testing continuously covers your attack surface.

• CVE-2026-31961Quill provides simple mac binary signing and notarization fr…5.5
• CVE-2026-31962HTSlib is a library for reading and writing bioinformatics f…8.8
• CVE-2026-31963HTSlib is a library for reading and writing bioinformatics f…8.1
• CVE-2026-31964HTSlib is a library for reading and writing bioinformatics f…7.5
• CVE-2026-31965HTSlib is a library for reading and writing bioinformatics f…8.2
• CVE-2026-31966HTSlib is a library for reading and writing bioinformatics f…9.1
• CVE-2026-31968HTSlib is a library for reading and writing bioinformatics f…8.1
• CVE-2026-31969HTSlib is a library for reading and writing bioinformatics f…8.1
• CVE-2026-3197Rejected reason: ** REJECT ** DO NOT USE THIS CANDIDATE NUMB…
• CVE-2026-31970HTSlib is a library for reading and writing bioinformatics f…8.1
• CVE-2026-31971HTSlib is a library for reading and writing bioinformatics f…8.1
• CVE-2026-31972SAMtools is a program for reading, manipulating and writing …9.8