People believed to have come from South Yunnan region migrated into the northern tip of Java during a time when Jepara was still separated by the Juwana Strait.
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In the 16th century, Jepara was an important port; in early 1513, its king, Yunnus (Pati Unus) led an attack against Portuguese Malacca.
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The eastern border is primarily a mountainous region, with the most notable peak being Mount Muria.
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The regency also include the Karimun Java archipelago, itself recognized as a subdistrict, located in Java Sea approximately 80 kilometers northwest from Jepara Regency.
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