diff --git a/hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/wal/SequenceIdAccounting.java b/hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/wal/SequenceIdAccounting.java
index 5c6fcd2d1aa6..6be95391819b 100644
--- a/hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/wal/SequenceIdAccounting.java
+++ b/hbase-server/src/main/java/org/apache/hadoop/hbase/regionserver/wal/SequenceIdAccounting.java
@@ -250,7 +250,11 @@ ConcurrentMap<ImmutableByteArray, Long> getOrCreateLowestSequenceIds(byte[] enco
    */
   private static long getLowestSequenceId(Map<?, Long> sequenceids) {
     long lowest = HConstants.NO_SEQNUM;
-    for (Long sid: sequenceids.values()) {
+    for (Map.Entry<? , Long> entry : sequenceids.entrySet()){
+      if (entry.getKey().toString().equals("METAFAMILY")){
+        continue;
+      }
+      Long sid = entry.getValue();
       if (lowest == HConstants.NO_SEQNUM || sid.longValue() < lowest) {
         lowest = sid.longValue();
       }
diff --git a/hbase-server/src/test/java/org/apache/hadoop/hbase/regionserver/wal/TestSequenceIdAccounting.java b/hbase-server/src/test/java/org/apache/hadoop/hbase/regionserver/wal/TestSequenceIdAccounting.java
index 098dc86461b6..8eb99b3a4772 100644
--- a/hbase-server/src/test/java/org/apache/hadoop/hbase/regionserver/wal/TestSequenceIdAccounting.java
+++ b/hbase-server/src/test/java/org/apache/hadoop/hbase/regionserver/wal/TestSequenceIdAccounting.java
@@ -44,10 +44,14 @@ public class TestSequenceIdAccounting {
 
   private static final byte [] ENCODED_REGION_NAME = Bytes.toBytes("r");
   private static final byte [] FAMILY_NAME = Bytes.toBytes("cf");
+  private static final byte [] META_FAMILY = Bytes.toBytes("METAFAMILY");
   private static final Set<byte[]> FAMILIES;
+  private static final Set<byte[]> META_FAMILY_SET;
   static {
     FAMILIES = new HashSet<>();
     FAMILIES.add(FAMILY_NAME);
+    META_FAMILY_SET = new HashSet<>();
+    META_FAMILY_SET.add(META_FAMILY);
   }
 
   @Test
@@ -123,6 +127,20 @@ public void testAreAllLower() {
     sida.update(ENCODED_REGION_NAME, FAMILIES, ++sequenceid, true);
     sida.update(ENCODED_REGION_NAME, FAMILIES, ++sequenceid, true);
     assertTrue(sida.areAllLower(m, null));
+    m.put(ENCODED_REGION_NAME, sequenceid);
+    assertFalse(sida.areAllLower(m, null));
+
+    // Test the METAFAMILY is filtered in SequenceIdAccounting.lowestUnflushedSequenceIds
+    SequenceIdAccounting meta_sida = new SequenceIdAccounting();
+    Map<byte[], Long> meta_m = new HashMap<>();
+    meta_sida.getOrCreateLowestSequenceIds(ENCODED_REGION_NAME);
+    meta_m.put(ENCODED_REGION_NAME, sequenceid);
+    meta_sida.update(ENCODED_REGION_NAME, META_FAMILY_SET, ++sequenceid, true);
+    meta_sida.update(ENCODED_REGION_NAME, META_FAMILY_SET, ++sequenceid, true);
+    meta_sida.update(ENCODED_REGION_NAME, META_FAMILY_SET, ++sequenceid, true);
+    assertTrue(meta_sida.areAllLower(meta_m, null));
+    meta_m.put(ENCODED_REGION_NAME, sequenceid);
+    assertTrue(meta_sida.areAllLower(meta_m, null));
   }
 
   @Test