If you are looking for good mystery anime to watch,this list is perfect for you, you will definitely like this list, it has classic and also new anime!

10. Hyouka

Oreki Houtarou is a minimalistic high school boy.

One day, he joins the Classic Literature Club at his elder sister’s request.

There he meets Chitanda Eru, Fukube Satoshi, and Ibara Mayaka. Chitanda is a calm beautiful girl but she turns into an embodiment of curiosity once she says, “I’m curious.”

Fukube is a smiling boy with a fantastic memory who calls himself a database. Ibara is a short girl and is strict with others and herself.

They begin to investigate a case that occurred 45 years ago.

Hints of the mystery are buried in an old collection of works of the former members of Classics Club. The collection is titled “Hyouka.”..

9. Mushishi Zoku Shou

They existed long before anyone can remember. They are simple and strange in nature, not resembling any other plant or animal in this world.

In ancient times, people revered these bizarre creatures and called them “Mushi.”

People once again began to believe in the existence of these “Mushi” when they began affecting their lives in inexplicable ways.

The one who connects the world of “Mushi” to the world of humans—they were called the “Mushi-shi.”

All life exists not to hinder others in this world.

They are simply there to live as they were meant to… 

8. Ergo Proxy

After the explosion of the methane hydrate layer, the remaining members of mankind are forced to live in isolated domed cities scattered across the arid and inhospitable planet.

They live in a controlled society and are assisted in daily life by autonomous robots called AutoReivs.

In one of these cities, Romdo, Inspector Re-l Mayer, granddaughter of the regent, leads an investigation concerning AutoReivs that have gone mad after being infected by the Cogito virus.

In the process, she comes in contact with a monster called Proxy.

Elsewhere in the city, immigrant Vincent Law is on the run after being framed for involvement in several Cogito cases.

7. Melancholy Of Haruhi Suzumiya

Kyon, your typical high school student, has long given up his belief in the supernatural.

However, upon meeting Haruhi Suzumiya, he quickly finds out that it is the supernatural that she is interested in—aliens, time travelers, and espers among other things.

When Haruhi laments about the lack of intriguing clubs around school, Kyon inspires Haruhi to form her own club.

As a result, the SOS Brigade is formed, a club which specializes in all that is the supernatural.

Much to his chagrin, Kyon, along with the silent bookworm, Yuki Nagato, the shy and timid Mikuru Asahina, and the perpetually smiling Itsuki Koizumi, are recruited as members.

The story follows the crazy adventures that these four endure under their whimsical leader, Haruhi…

6. Gosick

The story centers on Kazuya Kujo, the third son of a high-ranking officer of the Imperial Japanese Army, who is a transfer student to St. Marguerite Academy, where urban legends and horror stories are all the rage.

There he meets Victorique, a mysterious yet beautiful and brilliant girl who never comes to class and spends her days reading the entire contents of the library or solving mysteries that even detectives can not solve.

The series mostly focuses on Kazuya and Victorique getting involved in different mystery cases and their struggle to solve them, at the same time forming important bonds with different people.

5. Black Butler or Kuroshitsuji

On the night of Ciel Phantomhive tenth birthday, a fire engulfed his manor house, his parents were murdered, and he was captured by a mysterious organization.

After a month of enduring excruciating and humiliating torture, Ciel returns to the Phantomhive household with an enigmatic black-clad butler, Sebastian Michaelis.

To others, it seems that the butler is simply the best at his craft, from anticipating his young master’s needs to carrying them out to the best of his inexplicable abilities.

Little do they know, Sebastian is actually a demon that has entered into a contract with Ciel, promising to help the boy achieve revenge on those who have wronged him in exchange for his soul.

As the Queen’s Guard dog and standing at the top of the British underworld, Ciel solves the crimes plaguing London while waiting for the day he will exact his revenge…

4. Another

In 1972, a popular student in Yomiyama North Middle School’s class 3-3 named Misaki passed away during the school year.

Since then, the town of Yomiyama has been shrouded by a fearful atmosphere, from the dark secrets hidden deep within.

Twenty-six years later, fifteen-year-old Koichi Sakakibara transfers into class 3-3 of Yomiyama North and soon after discovers that a strange, gloomy mood seems to hang over all the students.

He also finds himself drawn to the mysterious, eyepatch-wearing student Mei Misaki; however, the rest of the class and the teachers seem to treat her like she doesn’t exist.

Paying no heed to warnings from everyone including Mei herself, Koichi begins to get closer not only to her, but also to the truth behind the gruesome phenomenon plaguing class 3-3 of Yomiyama North.

Based on Yukito Ayatsuji’s popular supernatural mystery/thriller novel, Another follows Koichi, Mei, and their classmates as they are pulled into the enigma surrounding a series of inevitable, tragic events—but unraveling the horror of Yomiyama may just cost them the ultimate price… 

3. Steins;Gate

All you need to do is wait till episode 12 and you will not be able to stop until you finish it.

2. Monster

Dr. Kenzo Tenma is a renowned young brain surgeon of Japanese descent working in Europe.

Highly lauded by his peers as one of the great young minds that will revolutionize the field, he is blessed with a beautiful fiancé and is on the cusp of a high promotion in the hospital he works at.

However, all of that is about to change with one critical decision that Dr. Tenma faces one night—whether to save the life of a young child or that of the town’s mayor.

Despite being pressured by his superiors to perform surgery on the mayor, his morals force him to perform the surgery on the young child, saving his life and forfeiting the mayor’s.

All of a sudden, Dr. Tenma’s world is turned upside down by his decision leading to the loss of everything he previously had.

A doctor is taught to believe that all life is equal; however, when a series of murders occur in the vicinity of Dr. Tenma, all of the evidence pointing to the young child who he saved, Tenma’s beliefs are shaken.

1. Detective Conan

The story follows the adventures of Shinichi Kudo, a young detective prodigy who was inadvertently shrunk into a child’s body due to a poison he was force-fed by members of a Black Organization.

Neighbor and family friend Professor Agasa strongly suggested Shinichi hide his identity to prevent them from killing him and the people he cares about, so Shinichi takes the name Conan Edogawa.

He goes to live with his childhood friend Ran Mouri and her father, Kogoro, and tries to use Kogoro’s detective agency as a way to find the people who shrank him without letting Ran figure out who he really is.

(source:otakukart)