plannotate/Base_t0.95/ori_breakdown.json

{
  "model": "Base_t0.95",
  "sequences_with_any_ori_hit": 1880,
  "distinct_ori_descriptions": 33,
  "top_ori_descriptions": {
    "high-copy-number ColE1/pMB1/pBR322/pUC origin of replication": 1537,
    "Plasmids containing the medium-copy-number p15A origin of replication can be propagated in E. coli cells that contain a second plasmid with the ColE1 origin.": 536,
    "f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis": 327,
    "replication origin of the broad-host-range plasmid pBBR1 from Bordetella bronchiseptica; requires the pBBR1 Rep protein for replication": 219,
    "SV40 origin of replication": 78,
    "Plasmids containing the RSF 1030 origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins.": 78,
    "M13 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis": 32,
    "yeast 2\u03bc plasmid origin of replication": 31,
    "the original enhanced GFP (Yang et al., 1996) mammalian codon-optimized": 29,
    "origin of replication for the Pseudomonas plasmid pVS1 (Heeb et al., 2000)": 28,
    "low-copy replication origin that requires the Rep101 protein": 27,
    "incP origin of transfer": 23,
    "incP origin of replication": 23,
    "RepA protein needed for replication with the pSC101 origin; rep101": 17,
    "Epstein-Barr virus oriP replication origin (Yates et al., 2000)": 14,
    "temperature-sensitive version of the RepA protein needed for replication with the pSC101 origin (Armstrong et al., 1984); rep101 encoding an A56V mutation": 11,
    "S. cerevisiae autonomously replicating sequence ARS1": 10,
    "\u03b3 replication origin from E. coli plasmid R6K; requires the R6K initiator protein pi for replication": 10,
    "Plasmids containing the ColA origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins.": 9,
    "secondary origin of replication for the bacterial F plasmid; also known as oriS": 5,
    "Epstein-Barr nuclear antigen 1, also known as EBNA-1 crucial for latent viral infection, and for episomal amplification of vectors containing the oriP origin (Okita et al., 2013)": 5,
    "origin of replication from bacterial plasmid pSa": 4,
    "VRPO_LAMBD - Protein inferred from homology: Swiss-Prot protein existence level 3. Necessary for the bidirectional replication of DNA. It interacts with the ori (origin of replication) region of the genome during the initiation of replication. From Escherichia phage lambda (Bacteriophage lambda).": 4,
    "replication origin of the broad-host-range plasmid RSF1010; requires the RSF1010 RepA/B/C proteins for replication (Scholz et al., 1989)": 3,
    "internally truncated variant of the Epstein-Barr virus oriP replication origin (Tanaka et al., 1999)": 3,
    "Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins.": 3,
    "soybean ascorbate peroxidase, engineered to serve as a monomeric tag for electron microscopy and live-cell proteomics (Lam et al., 2015) more active than the original APEX due to the A134P mutation": 2,
    "origin of replication for the bacterial F plasmid": 1,
    "Schizosaccharomyces pombe autonomously replicating sequence ars1": 1,
    "broad-host-range origin of replication from Pseudomonas aeruginosa plasmid pRO1600; requires the pRO1600 Rep protein for replication (West et al., 1994)": 1
  },
  "sequences_with_exactly_one_unique_ori_family": {
    "high-copy-number ColE1/pMB1/pBR322/pUC origin of replication": 753,
    "Plasmids containing the medium-copy-number p15A origin of replication can be propagated in E. coli cells that contain a second plasmid with the ColE1 origin.": 351,
    "replication origin of the broad-host-range plasmid pBBR1 from Bordetella bronchiseptica; requires the pBBR1 Rep protein for replication": 207,
    "incP origin of replication": 13,
    "f1 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis": 11,
    "Plasmids containing the RSF 1030 origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins.": 11,
    "origin of replication for the Pseudomonas plasmid pVS1 (Heeb et al., 2000)": 11,
    "yeast 2\u03bc plasmid origin of replication": 10,
    "Epstein-Barr virus oriP replication origin (Yates et al., 2000)": 9,
    "temperature-sensitive version of the RepA protein needed for replication with the pSC101 origin (Armstrong et al., 1984); rep101 encoding an A56V mutation": 7,
    "the original enhanced GFP (Yang et al., 1996) mammalian codon-optimized": 5,
    "low-copy replication origin that requires the Rep101 protein": 5,
    "S. cerevisiae autonomously replicating sequence ARS1": 5,
    "incP origin of transfer": 4,
    "Plasmids containing the ColA origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins.": 3,
    "SV40 origin of replication": 3,
    "internally truncated variant of the Epstein-Barr virus oriP replication origin (Tanaka et al., 1999)": 2,
    "M13 bacteriophage origin of replication; arrow indicates direction of (+) strand synthesis": 1,
    "Schizosaccharomyces pombe autonomously replicating sequence ars1": 1,
    "broad-host-range origin of replication from Pseudomonas aeruginosa plasmid pRO1600; requires the pRO1600 Rep protein for replication (West et al., 1994)": 1,
    "secondary origin of replication for the bacterial F plasmid; also known as oriS": 1,
    "Plasmids containing the CloDF13 (CDF) origin of replication can be propagated in E. coli cells that contain additional plasmids with compatible origins.": 1
  }
}