ref-solver 0.3.0

Solve reference genome identification from BAM/SAM headers
Documentation
{
  "id": "chm13v2",
  "display_name": "T2T-CHM13v2.0",
  "assembly": {
    "Other": "chm13"
  },
  "source": {
    "custom": "t2t"
  },
  "naming_convention": "mixed",
  "download_url": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
  "assembly_report_url": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_assembly_report.txt",
  "contigs": [
    {
      "name": "NC_060925.1",
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      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "CP068277.2",
        "1",
        "chr1"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
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      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "2",
        "CP068276.2",
        "chr2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060927.1",
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      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "CP068275.2",
        "3",
        "chr3"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060928.1",
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      "sha512t24u": "B5f4g5kiBInZy0qREU0PZr3ZVXd018y7",
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      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "chr4",
        "4",
        "CP068274.2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060929.1",
      "length": 182045439,
      "md5": "e069fd69dce480b348767fa9827671b4",
      "sha512t24u": "Z1-DN-r0aDfOSnfhMw-xYMmk5R_SMGm1",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "chr5",
        "5",
        "CP068273.2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060930.1",
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      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "6",
        "CP068272.2",
        "chr6"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
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      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "chr7"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
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      "md5": "29aeec58cb54d9132e2283839f9fcc9c",
      "sha512t24u": "nMrDOOwFLH-JRnTE-avAOFNhPpkmmc-Q",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "CP068270.2",
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        "chr8"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
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      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "chr9",
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      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060934.1",
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      "md5": "fbf3087282695f275d460157fc7864a5",
      "sha512t24u": "hWguOYPWvLYNA7rsqGLFikI0G-bzkHce",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "CP068268.2",
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      ],
      "sequence_role": "assembled-molecule"
    },
    {
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      "md5": "7f144a0b4800c341a4b4f1518838cc59",
      "sha512t24u": "jsrczUzFGixtlsbFNWSg9eeop4fwHwyA",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "chr11",
        "CP068267.2",
        "11"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060936.1",
      "length": 133324548,
      "md5": "5086cf368e83b9cefd7bb19ef0f40d3c",
      "sha512t24u": "Pu7CKolaqtbj0_3OMQCf_BKFEE7GMvtl",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "chr12",
        "CP068266.2",
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      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060937.1",
      "length": 113566686,
      "md5": "6f9949b26d5ece38c6cdefd48a516907",
      "sha512t24u": "ParpK2T2j01KRr9IgIklnzQ8DpTjlon-",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
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        "CP068265.2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060938.1",
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      "md5": "7ad36d43a1ab059e190ab918f27cb5bf",
      "sha512t24u": "qrn4JzTUlPJmhoaCvHvMQdoxxfBBgs-B",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
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        "CP068264.2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060939.1",
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      "md5": "914e0733351aaa9a4354ca8efb527401",
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      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
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        "chr15",
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      ],
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    },
    {
      "name": "NC_060940.1",
      "length": 96330374,
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      "sha512t24u": "CEgkNynB_UVQ38m9vA88qn_xIiJQHqj3",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
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        "16",
        "chr16"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060941.1",
      "length": 84276897,
      "md5": "8627043bd24255e9f356e0c99ece251f",
      "sha512t24u": "ibOlfL0yXZvyPHIjzS08D0kuqKIkIqSk",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "CP068261.2",
        "chr17",
        "17"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060942.1",
      "length": 80542538,
      "md5": "b6a85aabc31b2d57f707aa679a8612c5",
      "sha512t24u": "_aE9CdSQZZgotYGAT05qlxJoQywJbHlw",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "CP068260.2",
        "18",
        "chr18"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060943.1",
      "length": 61707364,
      "md5": "c2c74cb0832b34b9e8eebf4b744a88c1",
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      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
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        "19",
        "chr19"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060944.1",
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      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
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        "chr20",
        "20",
        "CP068258.2"
      ],
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    },
    {
      "name": "NC_060945.1",
      "length": 45090682,
      "md5": "760794bbbe965d4d1e3884bf09d1f306",
      "sha512t24u": "bboFugWC_sKlc7tZPEpUgoxWofFOcPUX",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "CP068257.2",
        "chr21",
        "21"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060946.1",
      "length": 51324926,
      "md5": "0068189b6b7c95e860cce0815662293f",
      "sha512t24u": "HwkRopQHJAPg6_Lt8-9YrzXuzyUadW66",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
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        "22",
        "CP068256.2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060947.1",
      "length": 154259566,
      "md5": "1f2616c4cfa30104517e44dd3c426453",
      "sha512t24u": "xrlHAe5hUN1d5EcfRYjPY0AMWFPxOomG",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "chrX",
        "X",
        "CP068255.2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "NC_060948.1",
      "length": 62460029,
      "md5": "775564f397e3690ae4e4f0372537ff49",
      "sha512t24u": "RVZf-n0H5wmBYfl2y7iKJqWV5j9tki4p",
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "chrY",
        "Y",
        "CP086569.2"
      ],
      "sequence_role": "assembled-molecule"
    },
    {
      "name": "MT",
      "length": 16569,
      "assembly": "chm13",
      "uri": "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/914/755/GCF_009914755.1_T2T-CHM13v2.0/GCF_009914755.1_T2T-CHM13v2.0_genomic.fna.gz",
      "species": "Homo sapiens",
      "aliases": [
        "chrM",
        "CP068254.1"
      ],
      "sequence_role": "assembled-molecule"
    }
  ],
  "description": "Telomere-to-Telomere CHM13v2.0 complete human genome",
  "contigs_missing_from_fasta": [
    "MT"
  ]
}