diff --git a/alexi/index.py b/alexi/index.py
index 9673d0a..b1fa0d1 100644
--- a/alexi/index.py
+++ b/alexi/index.py
@@ -104,6 +104,7 @@ def index(indir: Path, outdir: Path) -> None:
         trimmer.trimmer,
     )
     builder.pipeline.add(unifold)
+    builder.search_pipeline.add(unifold)
     builder.metadata_whitelist.append("position")
     LOGGER.info("pipeline: %s", builder.pipeline)
     LOGGER.info("search pipeline: %s", builder.pipeline)