CVE-2026-31966 HTSlib CRAM reader has out-of-bounds read due to improper validation of input

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...

CVE-2026-31966

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...

CVE-2026-31965 HTSlib CRAM reader has out-of-bounds reads due to improper validation of input

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the cramdecodeslice function called while reading CRAM records, validation of the reference id field occurred too late, allowing two out of bounds read...

CVE-2026-31965

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the cramdecodeslice function called while reading CRAM records, validation of the reference id field occurred too late, allowing two out of bounds read...

CVE-2026-31965 HTSlib CRAM reader has out-of-bounds reads due to improper validation of input

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the cramdecodeslice function called while reading CRAM records, validation of the reference id field occurred too late, allowing two out of bounds read...

CVE-2026-31965

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. In the cramdecodeslice function called while reading CRAM records, validation of the reference id field occurred too late, allowing two out of bounds read...

CVE-2026-31964

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data using a variety of encodings and compression methods. While most alignment records store DNA sequence and quality values, the format also allows them to om...

CVE-2026-31964 HTSlib CRAM decoder has a NULL Pointer Dereference

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data using a variety of encodings and compression methods. While most alignment records store DNA sequence and quality values, the format also allows them to om...

CVE-2026-31964 HTSlib CRAM decoder has a NULL Pointer Dereference

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data using a variety of encodings and compression methods. While most alignment records store DNA sequence and quality values, the format also allows them to om...

CVE-2026-31964

Summary: CVE-2026-31964 affects HTSlib’s CRAM encodings (CONST, XPACK, XRLE). When decoding CRAM records with omitted sequence or quality data, these encodings could write to a NULL pointer, causing a crash (NULL pointer dereference). This is described in the CVE entry with fixed versions listed ...

CVE-2026-31964 HTSlib CRAM decoder has a NULL Pointer Dereference

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data using a variety of encodings and compression methods. While most alignment records store DNA sequence and quality values, the format also allows them to om...

CVE-2026-31964

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data using a variety of encodings and compression methods. While most alignment records store DNA sequence and quality values, the format also allows them to om...

CVE-2026-31963

HTSlib CRAM reader vulnerability (CVE-2026-31963) arises from an out-by-one error when decoding CRAM features that extend beyond the record boundary. This can write one attacker-controlled byte past the end of a heap buffer, causing a heap buffer overflow. The issue may crash the program, overwri...

CVE-2026-31963 HTSlib CRAM reader has heap buffer overflow due to improper validation of input

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...

CVE-2026-31963

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...

CVE-2026-31962

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. While most alignment records store DNA sequence and quality values, the format also allows them to omit this data in certain cases to save space. Due to...

CVE-2026-31962

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. While most alignment records store DNA sequence and quality values, the format also allows them to omit this data in certain cases to save space. Due to...

CVE-2026-31962

HTSlib CRAM reader has a heap buffer overflow in cram_decode_seq() due to improper handling of certain CRAM records that omit data. The issue can cause out-of-bounds read followed by an attacker-controlled write, potentially allowing arbitrary code execution. Affected versions include 1.23.1, 1.2...

CVE-2026-31962

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. While most alignment records store DNA sequence and quality values, the format also allows them to omit this data in certain cases to save space. Due to...

CVE-2026-31962

HTSlib is a library for reading and writing bioinformatics file formats. CRAM is a compressed format which stores DNA sequence alignment data. While most alignment records store DNA sequence and quality values, the format also allows them to omit this data in certain cases to save space. Due to...