diff --git a/dexlayout/Android.bp b/dexlayout/Android.bp
index 9ee9ebd..cf523ec 100644
--- a/dexlayout/Android.bp
+++ b/dexlayout/Android.bp
@@ -19,6 +19,7 @@
         "dexlayout.cc",
         "dex_ir.cc",
         "dex_ir_builder.cc",
+	"dex_verify.cc",
         "dex_visualize.cc",
         "dex_writer.cc",
     ],
diff --git a/dexlayout/dex_ir.cc b/dexlayout/dex_ir.cc
index 34983cf..4228503 100644
--- a/dexlayout/dex_ir.cc
+++ b/dexlayout/dex_ir.cc
@@ -56,7 +56,7 @@
                     entry.end_address_, entry.reg_)));
 }
 
-static uint32_t GetCodeItemSize(const DexFile& dex_file, const DexFile::CodeItem& disk_code_item) {
+static uint32_t GetCodeItemSize(const DexFile::CodeItem& disk_code_item) {
   uintptr_t code_item_start = reinterpret_cast<uintptr_t>(&disk_code_item);
   uint32_t insns_size = disk_code_item.insns_size_in_code_units_;
   uint32_t tries_size = disk_code_item.tries_size_;
@@ -675,7 +675,7 @@
     }
   }
 
-  uint32_t size = GetCodeItemSize(dex_file, disk_code_item);
+  uint32_t size = GetCodeItemSize(disk_code_item);
   CodeItem* code_item = new CodeItem(
       registers_size, ins_size, outs_size, debug_info, insns_size, insns, tries, handler_list);
   code_item->SetSize(size);
diff --git a/dexlayout/dex_verify.cc b/dexlayout/dex_verify.cc
new file mode 100644
index 0000000..aec1d0c
--- /dev/null
+++ b/dexlayout/dex_verify.cc
@@ -0,0 +1,187 @@
+/*
+ * Copyright (C) 2017 The Android Open Source Project
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ *
+ *      http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ *
+ * Implementation file of dex ir verifier.
+ *
+ * Compares two dex files at the IR level, allowing differences in layout, but not in data.
+ */
+
+#include "dex_verify.h"
+
+#include "android-base/stringprintf.h"
+
+namespace art {
+
+using android::base::StringPrintf;
+
+bool VerifyOutputDexFile(dex_ir::Header* orig_header,
+                         dex_ir::Header* output_header,
+                         std::string* error_msg) {
+  dex_ir::Collections& orig = orig_header->GetCollections();
+  dex_ir::Collections& output = output_header->GetCollections();
+
+  // Compare all id sections.
+  if (!VerifyIds(orig.StringIds(), output.StringIds(), "string ids", error_msg) ||
+      !VerifyIds(orig.TypeIds(), output.TypeIds(), "type ids", error_msg) ||
+      !VerifyIds(orig.ProtoIds(), output.ProtoIds(), "proto ids", error_msg) ||
+      !VerifyIds(orig.FieldIds(), output.FieldIds(), "field ids", error_msg) ||
+      !VerifyIds(orig.MethodIds(), output.MethodIds(), "method ids", error_msg)) {
+    return false;
+  }
+  return true;
+}
+
+template<class T> bool VerifyIds(std::vector<std::unique_ptr<T>>& orig,
+                                 std::vector<std::unique_ptr<T>>& output,
+                                 const char* section_name,
+                                 std::string* error_msg) {
+  if (orig.size() != output.size()) {
+    *error_msg = StringPrintf(
+        "Mismatched size for %s section, %zu vs %zu.", section_name, orig.size(), output.size());
+    return false;
+  }
+  for (size_t i = 0; i < orig.size(); ++i) {
+    if (!VerifyId(orig[i].get(), output[i].get(), error_msg)) {
+      return false;
+    }
+  }
+  return true;
+}
+
+bool VerifyId(dex_ir::StringId* orig, dex_ir::StringId* output, std::string* error_msg) {
+  if (strcmp(orig->Data(), output->Data()) != 0) {
+    *error_msg = StringPrintf("Mismatched string data for string id %u @ orig offset %x, %s vs %s.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->Data(),
+                              output->Data());
+    return false;
+  }
+  return true;
+}
+
+bool VerifyId(dex_ir::TypeId* orig, dex_ir::TypeId* output, std::string* error_msg) {
+  if (orig->GetStringId()->GetIndex() != output->GetStringId()->GetIndex()) {
+    *error_msg = StringPrintf("Mismatched string index for type id %u @ orig offset %x, %u vs %u.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->GetStringId()->GetIndex(),
+                              output->GetStringId()->GetIndex());
+    return false;
+  }
+  return true;
+}
+
+bool VerifyId(dex_ir::ProtoId* orig, dex_ir::ProtoId* output, std::string* error_msg) {
+  if (orig->Shorty()->GetIndex() != output->Shorty()->GetIndex()) {
+    *error_msg = StringPrintf("Mismatched string index for proto id %u @ orig offset %x, %u vs %u.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->Shorty()->GetIndex(),
+                              output->Shorty()->GetIndex());
+    return false;
+  }
+  if (orig->ReturnType()->GetIndex() != output->ReturnType()->GetIndex()) {
+    *error_msg = StringPrintf("Mismatched type index for proto id %u @ orig offset %x, %u vs %u.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->ReturnType()->GetIndex(),
+                              output->ReturnType()->GetIndex());
+    return false;
+  }
+  if (!VerifyTypeList(orig->Parameters(), output->Parameters())) {
+    *error_msg = StringPrintf("Mismatched type list for proto id %u @ orig offset %x.",
+                              orig->GetIndex(),
+                              orig->GetOffset());
+  }
+  return true;
+}
+
+bool VerifyId(dex_ir::FieldId* orig, dex_ir::FieldId* output, std::string* error_msg) {
+  if (orig->Class()->GetIndex() != output->Class()->GetIndex()) {
+    *error_msg =
+        StringPrintf("Mismatched class type index for field id %u @ orig offset %x, %u vs %u.",
+                     orig->GetIndex(),
+                     orig->GetOffset(),
+                     orig->Class()->GetIndex(),
+                     output->Class()->GetIndex());
+    return false;
+  }
+  if (orig->Type()->GetIndex() != output->Type()->GetIndex()) {
+    *error_msg = StringPrintf("Mismatched type index for field id %u @ orig offset %x, %u vs %u.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->Class()->GetIndex(),
+                              output->Class()->GetIndex());
+    return false;
+  }
+  if (orig->Name()->GetIndex() != output->Name()->GetIndex()) {
+    *error_msg = StringPrintf("Mismatched string index for field id %u @ orig offset %x, %u vs %u.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->Name()->GetIndex(),
+                              output->Name()->GetIndex());
+    return false;
+  }
+  return true;
+}
+
+bool VerifyId(dex_ir::MethodId* orig, dex_ir::MethodId* output, std::string* error_msg) {
+  if (orig->Class()->GetIndex() != output->Class()->GetIndex()) {
+    *error_msg = StringPrintf("Mismatched type index for method id %u @ orig offset %x, %u vs %u.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->Class()->GetIndex(),
+                              output->Class()->GetIndex());
+    return false;
+  }
+  if (orig->Proto()->GetIndex() != output->Proto()->GetIndex()) {
+    *error_msg = StringPrintf("Mismatched proto index for method id %u @ orig offset %x, %u vs %u.",
+                              orig->GetIndex(),
+                              orig->GetOffset(),
+                              orig->Class()->GetIndex(),
+                              output->Class()->GetIndex());
+    return false;
+  }
+  if (orig->Name()->GetIndex() != output->Name()->GetIndex()) {
+    *error_msg =
+        StringPrintf("Mismatched string index for method id %u @ orig offset %x, %u vs %u.",
+                     orig->GetIndex(),
+                     orig->GetOffset(),
+                     orig->Name()->GetIndex(),
+                     output->Name()->GetIndex());
+    return false;
+  }
+  return true;
+}
+
+bool VerifyTypeList(const dex_ir::TypeList* orig, const dex_ir::TypeList* output) {
+  if (orig == nullptr || output == nullptr) {
+    return orig == output;
+  }
+  const dex_ir::TypeIdVector* orig_list = orig->GetTypeList();
+  const dex_ir::TypeIdVector* output_list = output->GetTypeList();
+  if (orig_list->size() != output_list->size()) {
+    return false;
+  }
+  for (size_t i = 0; i < orig_list->size(); ++i) {
+    if ((*orig_list)[i]->GetIndex() != (*output_list)[i]->GetIndex()) {
+      return false;
+    }
+  }
+  return true;
+}
+
+}  // namespace art
diff --git a/dexlayout/dex_verify.h b/dexlayout/dex_verify.h
new file mode 100644
index 0000000..a19431c
--- /dev/null
+++ b/dexlayout/dex_verify.h
@@ -0,0 +1,46 @@
+/*
+ * Copyright (C) 2017 The Android Open Source Project
+ *
+ * Licensed under the Apache License, Version 2.0 (the "License");
+ * you may not use this file except in compliance with the License.
+ * You may obtain a copy of the License at
+ *
+ *      http://www.apache.org/licenses/LICENSE-2.0
+ *
+ * Unless required by applicable law or agreed to in writing, software
+ * distributed under the License is distributed on an "AS IS" BASIS,
+ * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+ * See the License for the specific language governing permissions and
+ * limitations under the License.
+ *
+ * Header file of dex ir verifier.
+ *
+ * Compares two dex files at the IR level, allowing differences in layout, but not in data.
+ */
+
+#ifndef ART_DEXLAYOUT_DEX_VERIFY_H_
+#define ART_DEXLAYOUT_DEX_VERIFY_H_
+
+#include "dex_ir.h"
+
+namespace art {
+
+// Check that the output dex file contains the same data as the original.
+// Compares the dex IR of both dex files. Allows the dex files to have different layouts.
+bool VerifyOutputDexFile(dex_ir::Header* orig_header,
+                         dex_ir::Header* output_header,
+                         std::string* error_msg);
+template<class T> bool VerifyIds(std::vector<std::unique_ptr<T>>& orig,
+                                 std::vector<std::unique_ptr<T>>& output,
+                                 const char* section_name,
+                                 std::string* error_msg);
+bool VerifyId(dex_ir::StringId* orig, dex_ir::StringId* output, std::string* error_msg);
+bool VerifyId(dex_ir::TypeId* orig, dex_ir::TypeId* output, std::string* error_msg);
+bool VerifyId(dex_ir::ProtoId* orig, dex_ir::ProtoId* output, std::string* error_msg);
+bool VerifyId(dex_ir::FieldId* orig, dex_ir::FieldId* output, std::string* error_msg);
+bool VerifyId(dex_ir::MethodId* orig, dex_ir::MethodId* output, std::string* error_msg);
+bool VerifyTypeList(const dex_ir::TypeList* orig, const dex_ir::TypeList* output);
+
+}  // namespace art
+
+#endif  // ART_DEXLAYOUT_DEX_VERIFY_H_
diff --git a/dexlayout/dexlayout.cc b/dexlayout/dexlayout.cc
index f74fb4e..a310424 100644
--- a/dexlayout/dexlayout.cc
+++ b/dexlayout/dexlayout.cc
@@ -36,6 +36,7 @@
 #include "dex_file-inl.h"
 #include "dex_file_verifier.h"
 #include "dex_instruction-inl.h"
+#include "dex_verify.h"
 #include "dex_visualize.h"
 #include "dex_writer.h"
 #include "jit/profile_compilation_info.h"
@@ -1692,7 +1693,8 @@
   header_->SetFileSize(header_->FileSize() + diff);
 }
 
-void DexLayout::OutputDexFile(const std::string& dex_file_location) {
+void DexLayout::OutputDexFile(const DexFile* dex_file) {
+  const std::string& dex_file_location = dex_file->GetLocation();
   std::string error_msg;
   std::unique_ptr<File> new_file;
   if (!options_.output_to_memmap_) {
@@ -1725,18 +1727,24 @@
   if (new_file != nullptr) {
     UNUSED(new_file->FlushCloseOrErase());
   }
-  // Verify the output dex file is ok on debug builds.
+  // Verify the output dex file's structure for debug builds.
   if (kIsDebugBuild) {
     std::string location = "memory mapped file for " + dex_file_location;
-    std::unique_ptr<const DexFile> dex_file(DexFile::Open(mem_map_->Begin(),
-                                                          mem_map_->Size(),
-                                                          location,
-                                                          header_->Checksum(),
-                                                          /*oat_dex_file*/ nullptr,
-                                                          /*verify*/ true,
-                                                          /*verify_checksum*/ false,
-                                                          &error_msg));
-    DCHECK(dex_file != nullptr) << "Failed to re-open output file:" << error_msg;
+    std::unique_ptr<const DexFile> output_dex_file(DexFile::Open(mem_map_->Begin(),
+                                                                 mem_map_->Size(),
+                                                                 location,
+                                                                 header_->Checksum(),
+                                                                 /*oat_dex_file*/ nullptr,
+                                                                 /*verify*/ true,
+                                                                 /*verify_checksum*/ false,
+                                                                 &error_msg));
+    DCHECK(output_dex_file != nullptr) << "Failed to re-open output file:" << error_msg;
+  }
+  // Do IR-level comparison between input and output. This check ignores potential differences
+  // due to layout, so offsets are not checked. Instead, it checks the data contents of each item.
+  if (options_.verify_output_) {
+    std::unique_ptr<dex_ir::Header> orig_header(dex_ir::DexIrBuilder(*dex_file));
+    CHECK(VerifyOutputDexFile(orig_header.get(), header_, &error_msg)) << error_msg;
   }
 }
 
@@ -1774,7 +1782,7 @@
     if (info_ != nullptr) {
       LayoutOutputFile(dex_file);
     }
-    OutputDexFile(dex_file->GetLocation());
+    OutputDexFile(dex_file);
   }
 }
 
diff --git a/dexlayout/dexlayout.h b/dexlayout/dexlayout.h
index 74b5253..f26b423 100644
--- a/dexlayout/dexlayout.h
+++ b/dexlayout/dexlayout.h
@@ -58,6 +58,7 @@
   bool show_section_headers_ = false;
   bool show_section_statistics_ = false;
   bool verbose_ = false;
+  bool verify_output_ = false;
   bool visualize_pattern_ = false;
   OutputFormat output_format_ = kOutputPlain;
   const char* output_dex_directory_ = nullptr;
@@ -115,7 +116,7 @@
   // Creates a new layout for the dex file based on profile info.
   // Currently reorders ClassDefs, ClassDataItems, and CodeItems.
   void LayoutOutputFile(const DexFile* dex_file);
-  void OutputDexFile(const std::string& dex_file_location);
+  void OutputDexFile(const DexFile* dex_file);
 
   void DumpCFG(const DexFile* dex_file, int idx);
   void DumpCFG(const DexFile* dex_file, uint32_t dex_method_idx, const DexFile::CodeItem* code);
diff --git a/dexlayout/dexlayout_main.cc b/dexlayout/dexlayout_main.cc
index 3eac660..38faf96 100644
--- a/dexlayout/dexlayout_main.cc
+++ b/dexlayout/dexlayout_main.cc
@@ -1,4 +1,4 @@
-/*
+  /*
  * Copyright (C) 2016 The Android Open Source Project
  *
  * Licensed under the Apache License, Version 2.0 (the "License");
@@ -44,7 +44,7 @@
 static void Usage(void) {
   fprintf(stderr, "Copyright (C) 2016 The Android Open Source Project\n\n");
   fprintf(stderr, "%s: [-a] [-c] [-d] [-e] [-f] [-h] [-i] [-l layout] [-o outfile] [-p profile]"
-                  " [-s] [-w directory] dexfile...\n\n", kProgramName);
+                  " [-s] [-t] [-v] [-w directory] dexfile...\n\n", kProgramName);
   fprintf(stderr, " -a : display annotations\n");
   fprintf(stderr, " -b : build dex_ir\n");
   fprintf(stderr, " -c : verify checksum and exit\n");
@@ -58,6 +58,7 @@
   fprintf(stderr, " -p : profile file name (defaults to no profile)\n");
   fprintf(stderr, " -s : visualize reference pattern\n");
   fprintf(stderr, " -t : display file section sizes\n");
+  fprintf(stderr, " -v : verify output file is canonical to input (IR level comparison)\n");
   fprintf(stderr, " -w : output dex directory \n");
 }
 
@@ -76,7 +77,7 @@
 
   // Parse all arguments.
   while (1) {
-    const int ic = getopt(argc, argv, "abcdefghil:mo:p:stw:");
+    const int ic = getopt(argc, argv, "abcdefghil:mo:p:stvw:");
     if (ic < 0) {
       break;  // done
     }
@@ -132,6 +133,9 @@
         options.show_section_statistics_ = true;
         options.verbose_ = false;
         break;
+      case 'v':  // verify output
+        options.verify_output_ = true;
+        break;
       case 'w':  // output dex files directory
         options.output_dex_directory_ = optarg;
         break;