Yes normally the file template.css is ok to put that override.
Of course you need to alter colors to see changes, also it could be the case that you need an !important clause to make the override effective like this:
| Code: |
#jmap_sitemap {
background: -webkit-linear-gradient(top, #FF0000 0%, #727272 100%) !important;
background: -o-linear-gradient(top, #FF0000 0%, #727272 100%) !important;
background: -ms-linear-gradient(top, #FF0000 0%, #727272 100%) !important;
background: linear-gradient(top, #FF0000 0%, #727272 100%) !important;
}
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Try to clear the cache of the browser too, to ensure to get the new styles.
PS: that's a great news !