diff --git a/biology/minimap2/Makefile b/biology/minimap2/Makefile
index 18fa010b086a..879c4d525a8a 100644
--- a/biology/minimap2/Makefile
+++ b/biology/minimap2/Makefile
@@ -1,34 +1,34 @@
 PORTNAME=		minimap2
 DISTVERSIONPREFIX=	v
-DISTVERSION=		2.30
+DISTVERSION=		2.31
 CATEGORIES=		biology
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	Pairwise aligner for genomic and spliced nucleotide sequences
 WWW=		https://github.com/lh3/minimap2
 
 LICENSE=	MIT
 LICENSE_FILE=	${WRKSRC}/LICENSE.txt
 
 NOT_FOR_ARCHS=		i386 powerpc powerpcspe
 NOT_FOR_ARCHS_REASON=	Requires 64-bit processor, except ARM NEON
 
 BUILD_DEPENDS=	simde>0:devel/simde
 
 USES=		gmake localbase
 USE_GITHUB=	yes
 
 GH_ACCOUNT=	lh3
 
 ALL_TARGET=	extra
 INSTALL_TARGET=	install-strip
 
 MAKEFILE=	Makefile.simde
 MAKE_ARGS=	MAN1DIR=${PREFIX}/share/man/man1
 
 CFLAGS+=	-DHAVE_KALLOC
 
 pre-build:
 	${REINPLACE_CMD} -e 's|-msse4.1||g' -e 's|-msse2||g' ${WRKSRC}/Makefile.simde
 
 .include <bsd.port.mk>
diff --git a/biology/minimap2/distinfo b/biology/minimap2/distinfo
index f7c616549712..04ad36ba0177 100644
--- a/biology/minimap2/distinfo
+++ b/biology/minimap2/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1750076274
-SHA256 (lh3-minimap2-v2.30_GH0.tar.gz) = 4e5cd621be2b2685c5c88d9b9b169c7e036ab9fff2f3afe1a1d4091ae3176380
-SIZE (lh3-minimap2-v2.30_GH0.tar.gz) = 269912
+TIMESTAMP = 1779277163
+SHA256 (lh3-minimap2-v2.31_GH0.tar.gz) = bff334a0e4512644e2f3e29944aeec408f49450f4f74dc39fe89e5273869255b
+SIZE (lh3-minimap2-v2.31_GH0.tar.gz) = 271153