{"id":72835,"date":"2026-11-15T11:33:33","date_gmt":"2026-11-15T03:33:33","guid":{"rendered":"https:\/\/www.biocloudservice.com\/wordpress\/?p=72835"},"modified":"2026-11-15T11:33:33","modified_gmt":"2026-11-15T03:33:33","slug":"bakta-circular-topology-rotation-partial-cds-practice","status":"publish","type":"post","link":"https:\/\/www.biocloudservice.com\/wordpress\/bakta-circular-topology-rotation-partial-cds-practice\/","title":{"rendered":"Bakta \u6ce8\u91ca\u4e3a\u4f55\u53d7 FASTA \u8d77\u70b9\u5f71\u54cd\uff1f\u65cb\u8f6c\u540c\u4e00\u6761\u67d3\u8272\u4f53\uff0c\u5b9e\u8dd1\u68c0\u67e5\u73af\u72b6\u62d3\u6251\u4e0e\u8fb9\u754c\u57fa\u56e0"},"content":{"rendered":"<div class=\"ysx-method-guide\" style=\"max-width:820px;min-width:0;margin:0 auto;color:#26374a;line-height:1.86;overflow-wrap:anywhere\">\n<p>\u540c\u4e00\u6761\u73af\u72b6\u67d3\u8272\u4f53\uff0c\u53ea\u628a FASTA \u7684\u8d77\u70b9\u79fb\u5230\u53e6\u4e00\u4e2a\u4f4d\u7f6e\uff0c\u6ca1\u6709\u589e\u52a0\u6216\u5220\u9664\u4efb\u4f55\u78b1\u57fa\uff0c\u4e3a\u4ec0\u4e48\u6ce8\u91ca\u51fa\u7684\u86cb\u767d\u4ecd\u53ef\u80fd\u53d8\u5316\uff1f\u5173\u952e\u5728\u4e8e\u8f6f\u4ef6\u5982\u4f55\u7406\u89e3\u5e8f\u5217\u4e24\u7aef\u3002\u5bf9\u4e8e\u771f\u5b9e\u73af\u72b6\u5206\u5b50\uff0c\u6587\u4ef6\u672b\u7aef\u4e0e\u5f00\u5934\u76f8\u90bb\uff0c\u800c\u666e\u901a\u7ebf\u6027\u5e8f\u5217\u7684\u4e24\u7aef\u901a\u5e38\u6309\u8fb9\u754c\u5904\u7406\u3002<\/p>\n<p>\u672c\u6587\u5b9e\u9645\u8fd0\u884c Bakta 1.12.2\uff0c\u4f7f\u7528\u516c\u5f00\u5927\u80a0\u6746\u83cc\u67d3\u8272\u4f53\u5b8c\u6210\u56db\u7ec4\u5bf9\u7167\uff0c\u5206\u522b\u6bd4\u8f83\u539f\u59cb\u73af\u72b6\u3001\u65cb\u8f6c\u540e\u73af\u72b6\u3001\u65cb\u8f6c\u540e\u7ebf\u6027\uff0c\u4ee5\u53ca\u5141\u8bb8\u90e8\u5206\u57fa\u56e0\u7684\u7ebf\u6027\u6a21\u5f0f\u3002\u6211\u4eec\u8ffd\u8e2a\u540c\u4e00\u6761\u76ee\u6807\u86cb\u767d\u7684\u5750\u6807\u3001\u957f\u5ea6\u4e0e\u6821\u9a8c\u503c\uff0c\u5224\u65ad\u53d8\u5316\u6765\u81ea\u8f93\u5165\u8bf4\u660e\u8fd8\u662f\u78b1\u57fa\u672c\u8eab\u3002<\/p>\n<figure class=\"guide-figure\" style=\"margin:24px 0 28px\"><img loading=\"lazy\" decoding=\"async\" src=\"\/wordpress\/wp-content\/uploads\/2026\/11\/bakta-circular-topology-rotation-partial-cds-practice-guide.png\" alt=\"\u540c\u4e00\u6761 DNA\uff0c\u8fb9\u754c\u9884\u6d4b\u4f1a\u4e0d\u540c\u3002\u65cb\u8f6c\u516c\u5f00\u67d3\u8272\u4f53\uff0c\u5b9e\u8dd1\u68c0\u67e5\u62d3\u6251\u548c\u622a\u65ad\u3002\u6b63\u786e\u58f0\u660e\u73af\u72b6\uff0c\u76ee\u6807\u86cb\u767d\u4ecd\u4e3a 820 aa\uff0c\u8de8\u6587\u4ef6\u8fb9\u754c\uff0c\u5e8f\u5217\u6821\u9a8c\u503c\u4e0e\u539f\u59cb\u4e00\u81f4\u3002\u6309\u7ebf\u6027\u5e8f\u5217\u5904\u7406\uff0c\u53ea\u5f97\u5230 572 aa \u9884\u6d4b\uff0c\u529f\u80fd\u540d\u79f0\u4e0d\u80fd\u8bc1\u660e\u76ee\u6807\u4fdd\u6301\u5b8c\u6574\u3002\u5141\u8bb8\u90e8\u5206\u57fa\u56e0\uff0c\u5f97\u5230 598 aa \u4e0e 222 aa\uff0c\u4e24\u4e2a\u7247\u6bb5\u6ca1\u6709\u81ea\u52a8\u5408\u6210\u5b8c\u6574\u86cb\u767d\u3002\" width=\"1200\" height=\"840\" style=\"display:block;width:100%;height:auto;border-radius:10px\"><figcaption style=\"font-size:14px;line-height:1.6;margin:9px 2px 0;color:#475569\">\u65cb\u8f6c\u516c\u5f00\u67d3\u8272\u4f53\uff0c\u5b9e\u8dd1\u68c0\u67e5\u62d3\u6251\u548c\u622a\u65ad<\/figcaption><\/figure>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u672c\u6b21\u7814\u7a76\u7684\u662f\u7f16\u7801\u533a\uff0c\u4e0d\u662f\u5168\u90e8\u6ce8\u91ca\u6a21\u5757<\/h2>\n<p>\u8f93\u5165\u4e3a\u5927\u80a0\u6746\u83cc K-12 MG1655 \u7684 NC_000913.3\uff0c\u957f\u5ea6\u4e3a\u56db\u767e\u516d\u5341\u56db\u4e07\u4e00\u5343\u516d\u767e\u4e94\u5341\u4e8c\u78b1\u57fa\u3002\u672c\u6b21\u4f7f\u7528\u5b8c\u6574\u67d3\u8272\u4f53\uff0c\u4e0d\u662f\u622a\u53d6\u7247\u6bb5\uff0c\u5e76\u5728\u8fd0\u884c\u524d\u6838\u5bf9\u5e8f\u5217\u957f\u5ea6\u4e0e\u6821\u9a8c\u503c\u3002<a style=\"color:#456f93;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/www.ncbi.nlm.nih.gov\/nuccore\/NC_000913.3\">NCBI \u53c2\u8003\u5e8f\u5217<\/a><\/p>\n<p>\u4e3a\u4e86\u96c6\u4e2d\u89c2\u5bdf\u7f16\u7801\u533a\u548c\u8fb9\u754c\uff0c\u672c\u6b21\u660e\u786e\u8df3\u8fc7 RNA\u3001CRISPR\u3001\u77ed\u5f00\u653e\u9605\u8bfb\u6846\u3001\u7f3a\u53e3\u3001\u590d\u5236\u8d77\u70b9\u548c\u7ed8\u56fe\u7b49\u6a21\u5757\uff0c\u4fdd\u7559 CDS \u9884\u6d4b\u53ca\u76f8\u5e94\u529f\u80fd\u5904\u7406\u3002\u540e\u6587\u7684\u6570\u91cf\u5747\u4e3a\u8fd9\u4e2a\u8fd0\u884c\u8303\u56f4\u5185\u7684 CDS \u6570\uff0c\u4e0d\u80fd\u628a\u5b83\u5f53\u4f5c\u5b8c\u6574\u6ce8\u91ca\u6d41\u7a0b\u5305\u542b\u6240\u6709\u7279\u5f81\u7684\u603b\u91cf\u3002<\/p>\n<p>\u8fd9\u79cd\u8303\u56f4\u9650\u5b9a\u4e5f\u4f7f\u56db\u7ec4\u7ed3\u679c\u80fd\u591f\u6bd4\u8f83\u3002\u82e5\u4e00\u7ec4\u8df3\u8fc7\u67d0\u7c7b\u7279\u5f81\uff0c\u53e6\u4e00\u7ec4\u8fd0\u884c\u5168\u90e8\u6a21\u5757\uff0c\u518d\u6bd4\u8f83\u6700\u7ec8\u6761\u76ee\u603b\u6570\uff0c\u4f1a\u628a\u8fd0\u884c\u8303\u56f4\u5dee\u5f02\u6df7\u5165\u62d3\u6251\u95ee\u9898\u3002\u5b8c\u6574\u9009\u9879\u90fd\u5199\u5165\u590d\u73b0\u811a\u672c\uff0c\u6ca1\u6709\u5728\u7ed3\u679c\u51fa\u6765\u540e\u4e34\u65f6\u5220\u9009\u67d0\u4e00\u7ec4\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u8f6f\u4ef6\u3001\u4e3b\u6570\u636e\u5e93\u548c\u4f9d\u8d56\u6570\u636e\u5e93\u8981\u5206\u522b\u8bb0\u5f55<\/h2>\n<p>\u672c\u6b21\u8f6f\u4ef6\u5b9e\u9645\u8f93\u51fa\u7248\u672c\u4e3a 1.12.2\uff0c\u4f7f\u7528 BioContainers \u56fa\u5b9a\u7248\u672c\u955c\u50cf\uff0c\u4e3b\u6570\u636e\u5e93\u4e3a Bakta 6.0 \u7684 light \u7c7b\u578b\u3002\u955c\u50cf\u6458\u8981\u3001\u6570\u636e\u5e93\u5143\u6570\u636e\u548c\u4e0b\u8f7d\u5f52\u6863\u6821\u9a8c\u503c\u5747\u4fdd\u7559\u5728\u590d\u73b0\u8bf4\u660e\u4e2d\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-bash\">BAKTA_IMAGE='quay.io\/biocontainers\/bakta:1.12.2--pyhdfd78af_0'\r\ndocker pull &quot;$BAKTA_IMAGE&quot;\r\ndocker run --rm &quot;$BAKTA_IMAGE&quot; bakta --version\r\n<\/code><\/pre>\n<p>\u8f7b\u91cf\u6570\u636e\u5e93\u4e0e\u5b8c\u6574\u6570\u636e\u5e93\u4e0d\u80fd\u6df7\u4e3a\u4e00\u8c08\u3002\u5b83\u9002\u5408\u9700\u8981\u8f83\u5c0f\u53c2\u8003\u89c4\u6a21\u7684\u573a\u666f\uff0c\u4f46\u86cb\u767d\u6ce8\u91ca\u6240\u80fd\u4f7f\u7528\u7684\u4fe1\u606f\u8303\u56f4\u4e0e\u5b8c\u6574\u5e93\u4e0d\u540c\u3002\u672c\u4f8b\u8bb0\u5f55\u7684\u662f\u8f7b\u91cf\u5e93\u7ed3\u679c\uff0c\u6ca1\u6709\u8fd0\u884c\u4e24\u79cd\u5e93\u7684\u51c6\u786e\u7387\u5bf9\u6bd4\uff0c\u4e5f\u6ca1\u6709\u636e\u6b64\u58f0\u79f0\u8f7b\u91cf\u5e93\u5bf9\u6240\u6709\u5bf9\u8c61\u90fd\u8db3\u591f\u3002<a style=\"color:#456f93;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/github.com\/oschwengers\/bakta\">\u5b98\u65b9\u6570\u636e\u5e93\u7c7b\u578b\u4e0e\u5b89\u88c5\u8bf4\u660e<\/a><\/p>\n<p>\u5b89\u88c5\u8fc7\u7a0b\u4e2d\u8fd8\u6709\u4e00\u4e2a\u5b9e\u9645\u9047\u5230\u7684\u95ee\u9898\u3002\u6211\u4eec\u6700\u521d\u7ed9\u4e0b\u8f7d\u6587\u4ef6\u52a0\u4e0a\u4e86\u7248\u672c\u540e\u7f00\uff0c\u4f46\u5b89\u88c5\u5668\u636e\u6b64\u63a8\u5bfc\u7684\u76ee\u5f55\u540d\u4e0e\u5f52\u6863\u5185\u7684\u76ee\u5f55\u4e0d\u4e00\u81f4\uff0c\u89e3\u538b\u540e\u65e0\u6cd5\u5b9a\u4f4d\u6570\u636e\u5e93\u3002\u5c06\u6587\u4ef6\u540d\u6062\u590d\u4e3a <code>db-light.tar.xz<\/code> \u540e\uff0c\u5b89\u88c5\u53ca\u4f9d\u8d56\u6570\u636e\u5e93\u66f4\u65b0\u6210\u529f\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-bash\">bakta_db install -i db-light.tar.xz -o bakta-db\r\n<\/code><\/pre>\n<p>\u4e3b\u5e93\u7684\u7248\u672c\u6587\u4ef6\u5217\u51fa\u5efa\u5e93\u65f6\u7684\u4f9d\u8d56\u6765\u6e90\uff0c\u4f46\u5b89\u88c5\u6b65\u9aa4\u8fd8\u66f4\u65b0\u4e86 AMRFinderPlus \u6570\u636e\u5e93\u3002\u672c\u6b21\u5b9e\u9645\u4f7f\u7528\u7684\u4f9d\u8d56\u5e93\u7248\u672c\u4e3a 2026-10-29.1\uff0c\u4e0d\u80fd\u53ea\u7167\u6284\u4e3b\u5e93\u5143\u6570\u636e\u4e2d\u8f83\u65e9\u7684\u65e5\u671f\u3002\u6b63\u5f0f\u590d\u73b0\u5e94\u4fdd\u5b58\u8fd0\u884c\u65f6\u4f7f\u7528\u7684\u4f9d\u8d56\u5e93\u7248\u672c\u548c\u76ee\u5f55\u5feb\u7167\uff0c\u907f\u514d\u540e\u6765\u66f4\u65b0\u53c2\u8003\u5374\u4ecd\u58f0\u79f0\u73af\u5883\u5b8c\u5168\u76f8\u540c\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u65cb\u8f6c\u5e8f\u5217\u65f6\uff0c\u78b1\u57fa\u5185\u5bb9\u6ca1\u6709\u53d1\u751f\u6539\u53d8<\/h2>\n<p>\u9a71\u52a8\u628a\u539f\u59cb\u5e8f\u5217\u7684\u524d\u4e00\u5343\u96f6\u4e8c\u4e2a\u78b1\u57fa\u79fb\u5230\u672b\u5c3e\uff0c\u65b0\u7684\u7b2c\u4e00\u4f4d\u5bf9\u5e94\u539f\u59cb\u5e8f\u5217\u7b2c\u4e00\u5343\u96f6\u4e09\u4f4d\u3002\u64cd\u4f5c\u6ca1\u6709\u4e22\u5f03\u4efb\u4f55\u78b1\u57fa\uff0c\u4e5f\u6ca1\u6709\u5f15\u5165\u968f\u673a\u66ff\u6362\uff0c\u957f\u5ea6\u548c\u6574\u4f53\u78b1\u57fa\u7ec4\u6210\u4fdd\u6301\u4e00\u81f4\u3002<\/p>\n<p>\u53ef\u4ee5\u628a\u8fd9\u4e00\u6b65\u7406\u89e3\u4e3a\u4e3a\u540c\u4e00\u4e2a\u5706\u73af\u9009\u62e9\u4e0d\u540c\u7684\u7f16\u53f7\u8d77\u70b9\u3002\u4e24\u4e2a\u7ebf\u6027\u5b57\u7b26\u4e32\u7684\u6821\u9a8c\u503c\u4f1a\u4e0d\u540c\uff0c\u56e0\u4e3a\u5b57\u7b26\u6392\u5217\u8d77\u70b9\u53d8\u4e86\uff0c\u4f46\u6309\u5df2\u77e5\u65cb\u8f6c\u5173\u7cfb\u8fd8\u539f\u540e\uff0c\u5e94\u5f97\u5230\u5b8c\u5168\u76f8\u540c\u7684\u539f\u59cb\u5b57\u7b26\u4e32\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-python\">cut = 1002\r\nrotated = original[cut:] + original[:cut]\r\nassert len(rotated) == len(original)\r\nassert rotated[-cut:] + rotated[:-cut] == original\r\n<\/code><\/pre>\n<p>\u8fd9\u4e2a\u533a\u522b\u5f88\u91cd\u8981\u3002\u6821\u9a8c\u503c\u4e0d\u540c\u53ea\u80fd\u8bf4\u660e\u6587\u4ef6\u6216\u5b57\u7b26\u4e32\u5185\u5bb9\u4e0d\u540c\uff0c\u4e0d\u80fd\u5355\u72ec\u8bf4\u660e\u53d1\u751f\u4e86\u751f\u7269\u5b66\u7a81\u53d8\u3002\u5bf9\u4e8e\u73af\u72b6\u5e8f\u5217\uff0c\u8fd8\u9700\u8981\u8003\u8651\u8d77\u70b9\u3001\u65b9\u5411\u548c\u8868\u793a\u65b9\u5f0f\uff0c\u5efa\u7acb\u660e\u786e\u7684\u5750\u6807\u5bf9\u5e94\u5173\u7cfb\u540e\u518d\u89e3\u91ca\u5dee\u5f02\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u5982\u4f55\u544a\u8bc9\u7a0b\u5e8f\u8fd9\u662f\u4e00\u6761\u73af\u72b6\u67d3\u8272\u4f53<\/h2>\n<p>\u672c\u6b21\u901a\u8fc7\u590d\u5236\u5b50\u8bf4\u660e\u8868\u660e\u786e\u6307\u5b9a\u5e8f\u5217\u7c7b\u578b\u4e0e\u62d3\u6251\u3002\u8868\u4e2d\u7684\u539f\u59cb\u7f16\u53f7\u5fc5\u987b\u4e0e FASTA \u6807\u9898\u4e00\u81f4\uff0c\u5426\u5219\u4e0d\u80fd\u628a\u8bbe\u7f6e\u53ef\u9760\u5730\u5173\u8054\u5230\u76ee\u6807\u5e8f\u5217\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-bash\">printf 'EC_original\\tEC_original\\tchromosome\\tcircular\\t-\\n' &gt; original.tsv\r\nprintf 'EC_rotated\\tEC_rotated\\tchromosome\\tcircular\\t-\\n' &gt; rotated.tsv\r\n<\/code><\/pre>\n<p>\u5b9e\u9645 JSON \u8f93\u51fa\u786e\u8ba4\uff0c\u4e24\u7ec4\u73af\u72b6\u8fd0\u884c\u7684\u5e8f\u5217\u5747\u88ab\u6807\u4e3a\u5b8c\u6574\u67d3\u8272\u4f53\u548c\u73af\u72b6\u62d3\u6251\u3002\u4e24\u7ec4\u7ebf\u6027\u8fd0\u884c\u6ca1\u6709\u63d0\u4f9b\u8fd9\u4efd\u62d3\u6251\u8bf4\u660e\uff0c\u8f93\u51fa\u8bb0\u5f55\u4e3a\u975e\u5b8c\u6574\u3001\u7ebf\u6027\u7684 contig\u3002\u6211\u4eec\u68c0\u67e5\u4e86\u7a0b\u5e8f\u7406\u89e3\u540e\u7684\u5143\u6570\u636e\uff0c\u6ca1\u6709\u53ea\u6839\u636e\u63d0\u4ea4\u7684\u547d\u4ee4\u731c\u6d4b\u8bbe\u7f6e\u5df2\u7ecf\u751f\u6548\u3002<\/p>\n<p>\u771f\u5b9e\u9879\u76ee\u4e2d\uff0c\u73af\u72b6\u58f0\u660e\u5fc5\u987b\u6709\u7ec4\u88c5\u6216\u5176\u4ed6\u8bc1\u636e\u652f\u6301\u3002\u4e0d\u80fd\u4e3a\u4e86\u8ba9\u67d0\u4e2a\u8fb9\u754c\u57fa\u56e0\u770b\u8d77\u6765\u66f4\u5b8c\u6574\uff0c\u5c31\u628a\u666e\u901a\u8349\u56fe contig \u4e00\u5f8b\u8bbe\u4e3a\u73af\u72b6\u3002\u672c\u6b21\u4e4b\u6240\u4ee5\u80fd\u8fd9\u6837\u5bf9\u7167\uff0c\u662f\u56e0\u4e3a\u8f93\u5165\u6765\u81ea\u5df2\u77e5\u5b8c\u6574\u73af\u72b6\u53c2\u8003\uff0c\u5e76\u4e14\u65cb\u8f6c\u5173\u7cfb\u7531\u811a\u672c\u7cbe\u786e\u63a7\u5236\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u56db\u7ec4\u547d\u4ee4\u4fdd\u6301\u54ea\u4e9b\u6761\u4ef6\u76f8\u540c<\/h2>\n<p>\u56db\u7ec4\u4f7f\u7528\u540c\u4e00\u8f6f\u4ef6\u73af\u5883\u3001\u540c\u4e00\u6570\u636e\u5e93\u3001\u76f8\u540c\u7ebf\u7a0b\u6570\u3001\u76f8\u540c\u8f93\u51fa\u547d\u540d\u89c4\u5219\uff0c\u4ee5\u53ca\u76f8\u540c\u7684\u6a21\u5757\u8df3\u8fc7\u9009\u9879\u3002\u4e0b\u9762\u7684\u51fd\u6570\u96c6\u4e2d\u5199\u51fa\u5171\u540c\u8bbe\u7f6e\uff0c\u968f\u540e\u53ea\u6539\u53d8\u8f93\u5165\u3001\u62d3\u6251\u8868\u548c\u90e8\u5206\u57fa\u56e0\u9009\u9879\u3002<\/p>\n<pre style=\"max-width:100%;box-sizing:border-box;overflow-x:auto;margin:18px 0;padding:14px 16px;background:#f3f6fa;color:#1a293c;border:1px solid #d8e1ea;border-radius:8px;line-height:1.55;white-space:pre;overflow-wrap:normal;word-break:normal\"><code class=\"language-bash\">annotate_cds() {\r\n  bakta --db bakta-db\/db-light --threads 2 \\\r\n    --prefix sample --locus-tag DEMO --keep-contig-headers \\\r\n    --skip-trna --skip-tmrna --skip-rrna \\\r\n    --skip-ncrna --skip-ncrna-region --skip-crispr \\\r\n    --skip-sorf --skip-gap --skip-ori --skip-plot &quot;$@&quot;\r\n}\r\nannotate_cds --output original_circular \\\r\n  --replicons original.tsv original.fna\r\nannotate_cds --output rotated_circular \\\r\n  --replicons rotated.tsv rotated.fna\r\nannotate_cds --output rotated_linear rotated.fna\r\nannotate_cds --output rotated_linear_partial --partial rotated.fna\r\n<\/code><\/pre>\n<p>\u5b8c\u6574\u9a71\u52a8\u8fd8\u4f1a\u751f\u6210\u8f93\u5165\u6587\u4ef6\u3001\u8bfb\u53d6\u6bcf\u7ec4 JSON\uff0c\u5e76\u4e3a\u6240\u6709\u8f93\u51fa\u86cb\u767d\u8ba1\u7b97\u6821\u9a8c\u503c\u3002\u8bfb\u8005\u53ef\u4ee5\u76f4\u63a5\u8fd0\u884c\u4e0b\u8f7d\u5305\u4e2d\u7684\u9a71\u52a8\uff0c\u4e0d\u9700\u8981\u624b\u5de5\u6539\u5199\u4e0a\u5343\u6761\u6ce8\u91ca\u6765\u5b8c\u6210\u6bd4\u8f83\u3002<\/p>\n<div class=\"guide-table\" style=\"max-width:100%;overflow-x:auto;margin:18px 0\">\n<table style=\"display:table;width:100%;max-width:100%;min-width:0;table-layout:fixed;border-collapse:collapse;font-size:.92em;line-height:1.6\">\n<thead>\n<tr>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff7fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u8fd0\u884c\u6761\u4ef6<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff7fc;color:#1e293b;vertical-align:top;text-align:right;padding:6px;border:1px solid #c4cfdb\">CDS \u6570<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff7fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u5b8c\u6574\u76ee\u6807\u86cb\u767d<\/th>\n<th scope=\"col\" style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;background:#eff7fc;color:#1e293b;vertical-align:top;text-align:left;padding:6px;border:1px solid #c4cfdb\">\u8fb9\u754c\u8868\u73b0<\/th>\n<\/tr>\n<\/thead>\n<tbody>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u539f\u59cb\u8d77\u70b9\uff0c\u73af\u72b6<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb;text-align:right\">4310<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u4fdd\u7559<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u76ee\u6807\u4f4d\u4e8e\u5185\u90e8<\/td>\n<\/tr>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u65cb\u8f6c\u8d77\u70b9\uff0c\u73af\u72b6<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb;text-align:right\">4309<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u4fdd\u7559<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u4e00\u6761\u8de8\u8fb9\u754c CDS<\/td>\n<\/tr>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u65cb\u8f6c\u8d77\u70b9\uff0c\u7ebf\u6027<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb;text-align:right\">4309<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u672a\u4fdd\u7559<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u8f83\u77ed\u5185\u90e8\u8d77\u59cb\u9884\u6d4b<\/td>\n<\/tr>\n<tr>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u7ebf\u6027\u4e14\u5141\u8bb8\u90e8\u5206\u57fa\u56e0<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb;text-align:right\">4310<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u672a\u4fdd\u7559<\/td>\n<td style=\"white-space:normal;overflow-wrap:anywhere;word-break:normal;padding:6px;vertical-align:top;border:1px solid #c4cfdb\">\u4e24\u6761\u8fb9\u754c\u7247\u6bb5<\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<\/div>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u539f\u59cb\u76ee\u6807\u600e\u6837\u5b9a\u4f4d<\/h2>\n<p>\u539f\u59cb\u73af\u72b6\u8fd0\u884c\u4e2d\uff0c\u76ee\u6807 CDS \u4f4d\u4e8e\u4e09\u767e\u4e09\u5341\u4e03\u5230\u4e8c\u5343\u4e03\u767e\u4e5d\u5341\u4e5d\uff0c\u6b63\u94fe\uff0c\u7ffb\u8bd1\u86cb\u767d\u957f\u5ea6\u4e3a\u516b\u767e\u4e8c\u5341\u4e2a\u6c28\u57fa\u9178\u3002\u8f93\u51fa\u4ea7\u7269\u540d\u79f0\u4e3a\u53cc\u529f\u80fd\u5929\u51ac\u6c28\u9178\u6fc0\u9176\u4e0e\u9ad8\u4e1d\u6c28\u9178\u8131\u6c22\u9176\u76f8\u5173\u86cb\u767d\uff0c\u57fa\u56e0\u540d\u5b57\u6bb5\u4e3a\u7a7a\u3002<\/p>\n<p>\u8fd9\u91cc\u6ca1\u6709\u5f3a\u884c\u4e3a\u7a7a\u7684\u57fa\u56e0\u540d\u8865\u4e00\u4e2a\u7b26\u53f7\u3002\u529f\u80fd\u4ea7\u7269\u63cf\u8ff0\u3001\u6807\u51c6\u57fa\u56e0\u540d\u548c\u6570\u636e\u5e93\u4ea4\u53c9\u5f15\u7528\u662f\u4e0d\u540c\u5b57\u6bb5\uff0c\u6709\u4ea7\u7269\u540d\u79f0\u5e76\u4e0d\u8981\u6c42\u6bcf\u4e2a\u5b57\u6bb5\u90fd\u9f50\u5168\u3002\u5b9e\u9645\u68c0\u67e5\u5e94\u4fdd\u7559\u8fd9\u79cd\u533a\u522b\uff0c\u907f\u514d\u628a\u6574\u7406\u8868\u683c\u65f6\u6dfb\u52a0\u7684\u540d\u79f0\u8bef\u5f53\u6210\u5de5\u5177\u539f\u59cb\u8f93\u51fa\u3002<\/p>\n<p>\u76ee\u6807\u6240\u5728\u533a\u95f4\u8de8\u8fc7\u6211\u4eec\u9009\u62e9\u7684\u65cb\u8f6c\u5207\u70b9\uff0c\u56e0\u6b64\u65cb\u8f6c\u540e\u5b83\u7684\u4e00\u90e8\u5206\u51fa\u73b0\u5728\u6587\u4ef6\u672b\u5c3e\uff0c\u53e6\u4e00\u90e8\u5206\u51fa\u73b0\u5728\u5f00\u5934\u3002\u8fd9\u6b63\u662f\u7528\u6765\u68c0\u9a8c\u62d3\u6251\u8bf4\u660e\u80fd\u5426\u5e2e\u52a9\u7a0b\u5e8f\u6b63\u786e\u5904\u7406\u8fb9\u754c\u7684\u60c5\u5f62\u3002<\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 .55em;color:#182d43\">\u73af\u72b6\u7ed3\u679c\u4e2d\uff0c\u8d77\u70b9\u5927\u4e8e\u7ec8\u70b9\u4e0d\u4e00\u5b9a\u662f\u9519\u8bef<\/h2>\n<p>\u65cb\u8f6c\u540e\u73af\u72b6\u8fd0\u884c\u628a\u76ee\u6807\u8bb0\u5f55\u4e3a\u4ece 4,640,987 \u5230 1,797\uff0c\u5e76\u5e26\u6709\u8de8\u8fb9\u754c\u6807\u8bb0\u3002\u5176\u86cb\u767d\u4ecd\u4e3a\u516b\u767e\u4e8c\u5341\u4e2a\u6c28\u57fa\u9178\uff0c\u5e8f\u5217\u6821\u9a8c\u503c\u4e0e\u539f\u59cb\u76ee\u6807\u5b8c\u5168\u76f8\u540c\u3002<\/p>\n<p>\u8fd9\u7ec4\u5750\u6807\u4e0d\u80fd\u6309\u666e\u901a\u7ebf\u6027\u533a\u95f4\u76f4\u63a5\u8ba1\u7b97\u7ec8\u70b9\u51cf\u8d77\u70b9\u3002\u5e94\u5148\u53d6\u672b\u5c3e\u90e8\u5206\uff0c\u518d\u63a5\u5f00\u5934\u90e8\u5206\u3002\u672b\u5c3e\u957f\u5ea6\u4e3a\u516d\u767e\u516d\u5341\u516d\u78b1\u57fa\uff0c\u52a0\u5f00\u5934\u7684\u4e00\u5343\u4e03\u767e\u4e5d\u5341\u4e03\u78b1\u57fa\uff0c\u5171\u4e8c\u5343\u56db\u767e\u516d\u5341\u4e09\u78b1\u57fa\uff0c\u4e0e\u539f\u59cb CDS \u957f\u5ea6\u76f8\u540c\u3002<\/p>\n<p>\u5982\u679c\u628a\u8fd9\u6761\u8bb0\u5f55\u5f53\u6210\u8d77\u6b62\u98a0\u5012\u7684\u6570\u636e\u9519\u8bef\uff0c\u76f4\u63a5\u4ea4\u6362\u5750\u6807\u6216\u5220\u9664\uff0c\u5c31\u4f1a\u7834\u574f\u6b63\u786e\u7684\u8de8\u8fb9\u754c\u8868\u793a\u3002\u89e3\u6790\u8fd9\u7c7b\u7ed3\u679c\u65f6\uff0c\u5e94\u540c\u65f6\u8bfb\u53d6\u62d3\u6251\u3001\u8de8\u8fb9\u754c\u6807\u8bb0\u3001\u65b9\u5411\u548c\u5e8f\u5217\u957f\u5ea6\uff0c\u5e76\u6309\u76f8\u5e94\u683c\u5f0f\u89c4\u5219\u63d0\u53d6\u6838\u9178\u3002<\/p>\n<p>\u672c\u6b21\u67e5\u770b\u4e86\u56fa\u5b9a\u7248\u672c\u4e2d\u7ebf\u6027\u548c\u73af\u72b6\u9884\u6d4b\u7684\u5904\u7406\u903b\u8f91\uff0c\u786e\u8ba4\u4e24\u8005\u5bf9\u8fb9\u754c\u5019\u9009\u91c7\u7528\u4e0d\u540c\u8def\u5f84\uff0c\u4f46\u6700\u7ec8\u5224\u65ad\u4ecd\u4ee5\u5b9e\u9645\u5750\u6807\u4e0e\u86cb\u767d\u5e8f\u5217\u6838\u5bf9\u4e3a\u51c6\u3002<a style=\"color:#456f93;text-decoration:underline;text-underline-offset:2px\" href=\"https:\/\/raw.githubusercontent.com\/oschwengers\/bakta\/v1.12.2\/bakta\/features\/cds.py\">1.12.2 \u7684 CDS \u9884\u6d4b\u5b9e\u73b0<\/a><\/p>\n<h2 style=\"font-size:1.38em;line-height:1.5;margin:1.55em 0 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