CVE-2026-31963HTSlib CRAM reader has heap buffer overflow due to improper validation of input
- 8.8HighCVSS base score
- 0.41%Exploitation in 30 daysEPSS · top 64% of all CVEs
- NoKnown exploitednot in CISA's KEV catalog
- NonePublic exploitsnone known yet
Description
HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. As one method of removing redundant data, CRAM uses reference-based compression so that instead of storing the full sequence for each alignment record it stores a location in an external reference sequence along with a list of differences to the reference at that location as a sequence of "features". When decoding these features, an out-by-one error in a test for CRAM features that appear beyond the extent of the CRAM record sequence could result in an invalid write of one attacker-controlled byte beyond the end of a heap buffer. Exploiting this bug causes a heap buffer overflow. If a user opens a file crafted to exploit this issue, it could lead to the program crashing, or overwriting of data and heap structures in ways not expected by the program. It may be possible to use this to obtain arbitrary code execution. Versions 1.23.1, 1.22.2 and 1.21.1 include fixes for this issue. There is no workaround for this issue.
Timeline
ID reserved
By GitHub_M
- 8 days later
· 8 days later
Published
Changes after publication (a new score, a public exploit, EPSS crossing 1, 10 or 50 %, leaving KEV) are kept since November 2026; earlier ones are not known.
Scores
| Scored by | CVSS | Score | Vector |
|---|---|---|---|
| GitHub_MCNA (assigner) | 4.0 | High8.8 | CVSS:4.0/AV:N/AC:L/AT:N/PR:N/UI:N/VC:N/VI:H/VA:L/SC:N/SI:N/SA:N |
| NVDNVD · Analyzed | 4.0 | High8.8 | CVSS:4.0/AV:N/AC:L/AT:N/PR:N/UI:N/VC:N/VI:H/VA:L/SC:N/SI:N/SA:N/E:X/CR:X/IR:X/AR:X/MAV:X/MAC:X/MAT:X/MPR:X/MUI:X/MVC:X/MVI:X/MVA:X/MSC:X/MSI:X/MSA:X/S:X/AU:X/R:X/V:X/RE:X/U:X |
- EPSS (exploitation in 30 days)
- 0.41% · top 64% of all CVEs (13 Nov 2026)
- CISA SSVC
- Exploitation: none · Automatable: yes · Technical impact: partial
The list uses the assigner's score when there is one, then CISA's, then NVD's: High 8.8.
Affected products
References
Sources
The same CVE in the primary databases and aggregators, to check against.
- CVE.org record (opens in a new tab)
- CVE List JSON (GitHub) (opens in a new tab)
- NVD (opens in a new tab)
- FIRST EPSS (opens in a new tab)
- EUVD EUVD-2026-12930 (opens in a new tab)
- OSV.dev (opens in a new tab)
- GitHub Advisories (opens in a new tab)
- CIRCL Vulnerability-Lookup (opens in a new tab)
Badge for a README or a ticket
[](https://cveledger.app/cve/CVE-2026-31963)Record last updated .