diff --git a/readme.md b/readme.md
index 30b44f0..42a91ce 100644
--- a/readme.md
+++ b/readme.md
@@ -418,7 +418,10 @@ Options when running a BiGpairSEQ simulation of CDR3 alpha/beta matching:
 Example output:
 
 ```
+# cell sample filename: 8MilCells.csv
+# cell sample size: 8000000
 # sample plate filename: 8MilCells_Plate.csv
+# sample plate well count: 96
 # sequence dropout rate: 0.1
 # graph filename: 8MilGraph_rd2
 # MWM algorithm type: LEDA book with heap: FIBONACCI
@@ -430,8 +433,6 @@ Example output:
 # real sequence collision rate: 0.05
 # total alphas read from plate: 323711
 # total betas read from plate: 323981
-# pre-filter sequences present in all wells: true
-# pre-filter sequences based on occupancy/read count discrepancy: true
 # alphas in graph (after pre-filtering): 11707
 # betas in graph (after pre-filtering): 11705
 # high overlap threshold for pairing: 95