Flag | Administrative division | Adopted | Description |
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| | | 2008 | White flag with the Regional Government logo in the center. |
| | | 1859 (in revolution), 1996- | Flag of Atacama |
| | | | Blue flag with the Regional Intendance logo |
| | | 2013 | White flag with the regional coat of arms in the center |
| | | | White flag with the regional coat of arms in the center. |
| | | 2013 | Blue flag with a white star in the left down corner. To the top, in the middle, a yellow sun and a light blue sky. In the right superior side, a green land with dark green bands. |
| | | | Three horizontal stripes (blue, white and red) with the regional coat of arms in the center. |
| | | 2013 | Flag of Los Lagos |
| | | 2008 | Flag of Los Ríos Region |
| | | 1997 | Flag of Magallanes |
| | | 2002 (last modification) | White flag with the regional coat of arms in the center. |
| | | 2018 | White flag with the regional coat of arms in the center. |
| | | | White flag with the regional coat of arms in the center. |
| | | 2013 | Dark grey flag with the Regional Government logo in the center. |
| | | 2008 | White flag with the coat of arms of Tarapacá Region in the center. |
| | | | Blue flag with the regional coat of arms in the center. | |
Flag | Date | Use | Description |
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| 1991–present | Wenufoye, the Flag of Mapuche people | Five horizontal strips. In the top and down, two black stripes with twelve white gemil ("diamonds") each one. In the center, three light blue, green and red stripes. In the center, a yellow kultrun ("ceremonial drum") with red lines and pictures. |
| 2006–present | Reimiro, the Flag of Rapa Nui people | White field with a red Reimiro (a traditional religious figure sculpted in wood). |
| 2006–present | Flag of Aymara people | Wiphala |
| 2012–present | Flag of Alacaluf people | Two blue and green triangles divided by a white sash. In the blue triangle, a brown 8-point star. In the green triangle, a human figure made with brown circles. |
| 2016–present | Flag of Selk'nam people | 2 Horizontal stripes of dark red and white with a black lance in the center and 4 golden 6-pointed stars in the canton. |
| 2020–present | Flag of Chango people | Three stripes with marine and reddish colors. A central element that groups together the activities of the town and representative silhouettes of the coastal mountain range and the waves of the sea. Nine white dots accompany the central circle. |
| 2017–present | Flag of Colla people in Chile | Four horizontal stripes yellow, white, black and red. |
| 2018–present | Flag of Diaguita people | |
| - | Flag of Yaghan people | |
| 2020–present | Flag of Afro-Chileans people | | |
Flag | Date | Use | Description |
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| 1506–1701 16th and 17th centuries | Mapuche military flag during the Arauco War | Blue field with a guñelve (eight-pointed star). |
| ?–1557 | Mapuche flag, used by Lautaro forces, in Arauco War | Light blue gemil with a guñelve star bordered by black triangles |
| 1541–1785 | Burgundy Cross, flag of the Spanish forces in Arauco War and flag of the Spanish Overseas Territories | A red saltire resembling two crossed, roughly-pruned (knotted) branches, on a white field. |
| 1785–1812, 1814–1817 | Spanish national flag and war ensign | |
| 19th Century | Selk'nam people Flag | This version of the Selk'nam flag was created in a sewing workshop in the late 19th century by Selk'nam girls and women at the Salesian Mission of San Rafael on Dawson Island, Chile. The design of this flag responds to the fact that according to their mythology when they died they became stars. |
| 1812–1814 | First National Flag, also called Bandera de la Patria Vieja ("Old Fatherland Flag") | Three horizontal strips blue, white and yellow. |
| 1812–1814 | Alternative version of the First Chilean flag | Different order of the strips, with the first Chilean coat of arms and a red Cruz de Santiago (Cross of St. James) in the top left corner. |
| 1814–1817 | Flag of the Andes, ensign of the Army of the Andes, now the provincial flag of Mendoza (Argentina) | Two rectangles, white and light blue, with the coat of arms in the center. |
| 1817–1818 | Second National Flag, now also called Bandera de Transición ("Transitory flag") | Tricolour similar to flag of Yugoslavia, Three horizontal strips blue, white and red. |
| 1818, only a few days | Alternative flag | Tricolour similar to flag of Russia, Three horizontal strips white, blue and red, with a white star in blue strip. |
| 1818–1834 | First design of the actual flag, also called Bandera de la Independencia ("Independence Flag") | Similar to flags of Texas, Poland, and Czechoslovakia, and to actual ensign for Chilean Independence flag, with the coat of arms in the center, and a black eight-pointed star within the white five-pointed star. |
| 1820–1822 | | |
| 1826–1854 | Civil flag | |
| 1860–1862 | Flag of the Kingdom of Araucanía and Patagonia | Three horizontal strips blue, white and green. |
| 1880–1888 | Flag of the Kingdom of Easter Island | Similar to actual Reimiro flag, with four black manutaras (mythological bird) in each corner. |
| 1888–1902 | Flag of the Kingdom of Easter Island | Similar to the flag of Chile, with white and red fields reversed, and the star in the blue canton replaced by Christian and traditional Rapa Nui symbols. Used during the first years after the annexation until the arrival of the ship Baquedano in 1902. |
| 1860s | A recreation of Dutrou-Bornier's flag. | | |