CVE-2026-31965 (GCVE-0-2026-31965)
Vulnerability from cvelistv5 – Published: 2026-03-18 18:50 – Updated: 2026-03-19 14:52
VLAI?
Title
HTSlib CRAM reader has out-of-bounds reads due to improper validation of input
Summary
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, validation of the reference id field occurred too late, allowing two out of bounds reads to occur before the invalid data was detected. The bug does allow two values to be leaked to the caller, however as the function reports an error it may be difficult to exploit them. It is also possible that the program will crash due to trying 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.
Severity ?
Assigner
References
| URL | Tags | |||||||
|---|---|---|---|---|---|---|---|---|
|
||||||||
Impacted products
{
"containers": {
"adp": [
{
"metrics": [
{
"other": {
"content": {
"id": "CVE-2026-31965",
"options": [
{
"Exploitation": "none"
},
{
"Automatable": "yes"
},
{
"Technical Impact": "partial"
}
],
"role": "CISA Coordinator",
"timestamp": "2026-03-19T14:52:21.615286Z",
"version": "2.0.3"
},
"type": "ssvc"
}
}
],
"providerMetadata": {
"dateUpdated": "2026-03-19T14:52:36.357Z",
"orgId": "134c704f-9b21-4f2e-91b3-4a467353bcc0",
"shortName": "CISA-ADP"
},
"title": "CISA ADP Vulnrichment"
}
],
"cna": {
"affected": [
{
"product": "htslib",
"vendor": "samtools",
"versions": [
{
"status": "affected",
"version": "\u003c 1.21.1"
},
{
"status": "affected",
"version": "\u003e= 1.22, \u003c 1.22.2"
},
{
"status": "affected",
"version": "= 1.23"
}
]
}
],
"descriptions": [
{
"lang": "en",
"value": "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, validation of the reference id field occurred too late, allowing two out of bounds reads to occur before the invalid data was detected. The bug does allow two values to be leaked to the caller, however as the function reports an error it may be difficult to exploit them. It is also possible that the program will crash due to trying 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."
}
],
"metrics": [
{
"cvssV4_0": {
"attackComplexity": "LOW",
"attackRequirements": "NONE",
"attackVector": "NETWORK",
"baseScore": 6.9,
"baseSeverity": "MEDIUM",
"privilegesRequired": "NONE",
"subAvailabilityImpact": "NONE",
"subConfidentialityImpact": "NONE",
"subIntegrityImpact": "NONE",
"userInteraction": "NONE",
"vectorString": "CVSS:4.0/AV:N/AC:L/AT:N/PR:N/UI:N/VC:L/VI:N/VA:L/SC:N/SI:N/SA:N",
"version": "4.0",
"vulnAvailabilityImpact": "LOW",
"vulnConfidentialityImpact": "LOW",
"vulnIntegrityImpact": "NONE"
}
}
],
"problemTypes": [
{
"descriptions": [
{
"cweId": "CWE-125",
"description": "CWE-125: Out-of-bounds Read",
"lang": "en",
"type": "CWE"
}
]
},
{
"descriptions": [
{
"cweId": "CWE-129",
"description": "CWE-129: Improper Validation of Array Index",
"lang": "en",
"type": "CWE"
}
]
}
],
"providerMetadata": {
"dateUpdated": "2026-03-18T18:50:37.333Z",
"orgId": "a0819718-46f1-4df5-94e2-005712e83aaa",
"shortName": "GitHub_M"
},
"references": [
{
"name": "https://github.com/samtools/htslib/security/advisories/GHSA-mqm2-v645-3qhr",
"tags": [
"x_refsource_CONFIRM"
],
"url": "https://github.com/samtools/htslib/security/advisories/GHSA-mqm2-v645-3qhr"
},
{
"name": "https://github.com/samtools/htslib/commit/9cefb46453ad471e933b8212d4f45920524d3357",
"tags": [
"x_refsource_MISC"
],
"url": "https://github.com/samtools/htslib/commit/9cefb46453ad471e933b8212d4f45920524d3357"
}
],
"source": {
"advisory": "GHSA-mqm2-v645-3qhr",
"discovery": "UNKNOWN"
},
"title": "HTSlib CRAM reader has out-of-bounds reads due to improper validation of input"
}
},
"cveMetadata": {
"assignerOrgId": "a0819718-46f1-4df5-94e2-005712e83aaa",
"assignerShortName": "GitHub_M",
"cveId": "CVE-2026-31965",
"datePublished": "2026-03-18T18:50:37.333Z",
"dateReserved": "2026-03-10T15:40:10.484Z",
"dateUpdated": "2026-03-19T14:52:36.357Z",
"state": "PUBLISHED"
},
"dataType": "CVE_RECORD",
"dataVersion": "5.2",
"vulnerability-lookup:meta": {
"epss": {
"cve": "CVE-2026-31965",
"date": "2026-04-14",
"epss": "0.00053",
"percentile": "0.16446"
},
"nvd": "{\"cve\":{\"id\":\"CVE-2026-31965\",\"sourceIdentifier\":\"security-advisories@github.com\",\"published\":\"2026-03-18T19:16:04.823\",\"lastModified\":\"2026-03-19T14:47:35.917\",\"vulnStatus\":\"Analyzed\",\"cveTags\":[],\"descriptions\":[{\"lang\":\"en\",\"value\":\"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, validation of the reference id field occurred too late, allowing two out of bounds reads to occur before the invalid data was detected. The bug does allow two values to be leaked to the caller, however as the function reports an error it may be difficult to exploit them. It is also possible that the program will crash due to trying 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.\"}],\"metrics\":{\"cvssMetricV40\":[{\"source\":\"security-advisories@github.com\",\"type\":\"Secondary\",\"cvssData\":{\"version\":\"4.0\",\"vectorString\":\"CVSS:4.0/AV:N/AC:L/AT:N/PR:N/UI:N/VC:L/VI:N/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\",\"baseScore\":6.9,\"baseSeverity\":\"MEDIUM\",\"attackVector\":\"NETWORK\",\"attackComplexity\":\"LOW\",\"attackRequirements\":\"NONE\",\"privilegesRequired\":\"NONE\",\"userInteraction\":\"NONE\",\"vulnConfidentialityImpact\":\"LOW\",\"vulnIntegrityImpact\":\"NONE\",\"vulnAvailabilityImpact\":\"LOW\",\"subConfidentialityImpact\":\"NONE\",\"subIntegrityImpact\":\"NONE\",\"subAvailabilityImpact\":\"NONE\",\"exploitMaturity\":\"NOT_DEFINED\",\"confidentialityRequirement\":\"NOT_DEFINED\",\"integrityRequirement\":\"NOT_DEFINED\",\"availabilityRequirement\":\"NOT_DEFINED\",\"modifiedAttackVector\":\"NOT_DEFINED\",\"modifiedAttackComplexity\":\"NOT_DEFINED\",\"modifiedAttackRequirements\":\"NOT_DEFINED\",\"modifiedPrivilegesRequired\":\"NOT_DEFINED\",\"modifiedUserInteraction\":\"NOT_DEFINED\",\"modifiedVulnConfidentialityImpact\":\"NOT_DEFINED\",\"modifiedVulnIntegrityImpact\":\"NOT_DEFINED\",\"modifiedVulnAvailabilityImpact\":\"NOT_DEFINED\",\"modifiedSubConfidentialityImpact\":\"NOT_DEFINED\",\"modifiedSubIntegrityImpact\":\"NOT_DEFINED\",\"modifiedSubAvailabilityImpact\":\"NOT_DEFINED\",\"Safety\":\"NOT_DEFINED\",\"Automatable\":\"NOT_DEFINED\",\"Recovery\":\"NOT_DEFINED\",\"valueDensity\":\"NOT_DEFINED\",\"vulnerabilityResponseEffort\":\"NOT_DEFINED\",\"providerUrgency\":\"NOT_DEFINED\"}}],\"cvssMetricV31\":[{\"source\":\"nvd@nist.gov\",\"type\":\"Primary\",\"cvssData\":{\"version\":\"3.1\",\"vectorString\":\"CVSS:3.1/AV:N/AC:L/PR:N/UI:N/S:U/C:L/I:N/A:H\",\"baseScore\":8.2,\"baseSeverity\":\"HIGH\",\"attackVector\":\"NETWORK\",\"attackComplexity\":\"LOW\",\"privilegesRequired\":\"NONE\",\"userInteraction\":\"NONE\",\"scope\":\"UNCHANGED\",\"confidentialityImpact\":\"LOW\",\"integrityImpact\":\"NONE\",\"availabilityImpact\":\"HIGH\"},\"exploitabilityScore\":3.9,\"impactScore\":4.2}]},\"weaknesses\":[{\"source\":\"security-advisories@github.com\",\"type\":\"Primary\",\"description\":[{\"lang\":\"en\",\"value\":\"CWE-125\"},{\"lang\":\"en\",\"value\":\"CWE-129\"}]}],\"configurations\":[{\"nodes\":[{\"operator\":\"OR\",\"negate\":false,\"cpeMatch\":[{\"vulnerable\":true,\"criteria\":\"cpe:2.3:a:htslib:htslib:*:*:*:*:*:*:*:*\",\"versionEndExcluding\":\"1.21.1\",\"matchCriteriaId\":\"A069D6B6-FFF6-4DB7-9811-A568ECC4B288\"},{\"vulnerable\":true,\"criteria\":\"cpe:2.3:a:htslib:htslib:*:*:*:*:*:*:*:*\",\"versionStartIncluding\":\"1.22\",\"versionEndExcluding\":\"1.22.2\",\"matchCriteriaId\":\"D9D525C8-C8AD-4368-A396-EB4D9DA02B1C\"},{\"vulnerable\":true,\"criteria\":\"cpe:2.3:a:htslib:htslib:1.23:*:*:*:*:*:*:*\",\"matchCriteriaId\":\"AAA6BBB2-76F3-4372-9BAE-FDE157401EFD\"}]}]}],\"references\":[{\"url\":\"https://github.com/samtools/htslib/commit/9cefb46453ad471e933b8212d4f45920524d3357\",\"source\":\"security-advisories@github.com\",\"tags\":[\"Patch\"]},{\"url\":\"https://github.com/samtools/htslib/security/advisories/GHSA-mqm2-v645-3qhr\",\"source\":\"security-advisories@github.com\",\"tags\":[\"Patch\",\"Vendor Advisory\"]}]}}",
"vulnrichment": {
"containers": "{\"adp\": [{\"title\": \"CISA ADP Vulnrichment\", \"metrics\": [{\"other\": {\"type\": \"ssvc\", \"content\": {\"id\": \"CVE-2026-31965\", \"role\": \"CISA Coordinator\", \"options\": [{\"Exploitation\": \"none\"}, {\"Automatable\": \"yes\"}, {\"Technical Impact\": \"partial\"}], \"version\": \"2.0.3\", \"timestamp\": \"2026-03-19T14:52:21.615286Z\"}}}], \"providerMetadata\": {\"orgId\": \"134c704f-9b21-4f2e-91b3-4a467353bcc0\", \"shortName\": \"CISA-ADP\", \"dateUpdated\": \"2026-03-19T14:52:32.516Z\"}}], \"cna\": {\"title\": \"HTSlib CRAM reader has out-of-bounds reads due to improper validation of input\", \"source\": {\"advisory\": \"GHSA-mqm2-v645-3qhr\", \"discovery\": \"UNKNOWN\"}, \"metrics\": [{\"cvssV4_0\": {\"version\": \"4.0\", \"baseScore\": 6.9, \"attackVector\": \"NETWORK\", \"baseSeverity\": \"MEDIUM\", \"vectorString\": \"CVSS:4.0/AV:N/AC:L/AT:N/PR:N/UI:N/VC:L/VI:N/VA:L/SC:N/SI:N/SA:N\", \"userInteraction\": \"NONE\", \"attackComplexity\": \"LOW\", \"attackRequirements\": \"NONE\", \"privilegesRequired\": \"NONE\", \"subIntegrityImpact\": \"NONE\", \"vulnIntegrityImpact\": \"NONE\", \"subAvailabilityImpact\": \"NONE\", \"vulnAvailabilityImpact\": \"LOW\", \"subConfidentialityImpact\": \"NONE\", \"vulnConfidentialityImpact\": \"LOW\"}}], \"affected\": [{\"vendor\": \"samtools\", \"product\": \"htslib\", \"versions\": [{\"status\": \"affected\", \"version\": \"\u003c 1.21.1\"}, {\"status\": \"affected\", \"version\": \"\u003e= 1.22, \u003c 1.22.2\"}, {\"status\": \"affected\", \"version\": \"= 1.23\"}]}], \"references\": [{\"url\": \"https://github.com/samtools/htslib/security/advisories/GHSA-mqm2-v645-3qhr\", \"name\": \"https://github.com/samtools/htslib/security/advisories/GHSA-mqm2-v645-3qhr\", \"tags\": [\"x_refsource_CONFIRM\"]}, {\"url\": \"https://github.com/samtools/htslib/commit/9cefb46453ad471e933b8212d4f45920524d3357\", \"name\": \"https://github.com/samtools/htslib/commit/9cefb46453ad471e933b8212d4f45920524d3357\", \"tags\": [\"x_refsource_MISC\"]}], \"descriptions\": [{\"lang\": \"en\", \"value\": \"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, validation of the reference id field occurred too late, allowing two out of bounds reads to occur before the invalid data was detected. The bug does allow two values to be leaked to the caller, however as the function reports an error it may be difficult to exploit them. It is also possible that the program will crash due to trying 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.\"}], \"problemTypes\": [{\"descriptions\": [{\"lang\": \"en\", \"type\": \"CWE\", \"cweId\": \"CWE-125\", \"description\": \"CWE-125: Out-of-bounds Read\"}]}, {\"descriptions\": [{\"lang\": \"en\", \"type\": \"CWE\", \"cweId\": \"CWE-129\", \"description\": \"CWE-129: Improper Validation of Array Index\"}]}], \"providerMetadata\": {\"orgId\": \"a0819718-46f1-4df5-94e2-005712e83aaa\", \"shortName\": \"GitHub_M\", \"dateUpdated\": \"2026-03-18T18:50:37.333Z\"}}}",
"cveMetadata": "{\"cveId\": \"CVE-2026-31965\", \"state\": \"PUBLISHED\", \"dateUpdated\": \"2026-03-19T14:52:36.357Z\", \"dateReserved\": \"2026-03-10T15:40:10.484Z\", \"assignerOrgId\": \"a0819718-46f1-4df5-94e2-005712e83aaa\", \"datePublished\": \"2026-03-18T18:50:37.333Z\", \"assignerShortName\": \"GitHub_M\"}",
"dataType": "CVE_RECORD",
"dataVersion": "5.2"
}
}
}
Loading…
Loading…
Sightings
| Author | Source | Type | Date |
|---|
Nomenclature
- Seen: The vulnerability was mentioned, discussed, or observed by the user.
- Confirmed: The vulnerability has been validated from an analyst's perspective.
- Published Proof of Concept: A public proof of concept is available for this vulnerability.
- Exploited: The vulnerability was observed as exploited by the user who reported the sighting.
- Patched: The vulnerability was observed as successfully patched by the user who reported the sighting.
- Not exploited: The vulnerability was not observed as exploited by the user who reported the sighting.
- Not confirmed: The user expressed doubt about the validity of the vulnerability.
- Not patched: The vulnerability was not observed as successfully patched by the user who reported the sighting.
Loading…
Loading…