EBL:Ortholog Alignments: Difference between revisions
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[[File:Concat_align_BBB01-BBB14_withSV1_excl.nex.con.png| | [[File:Concat_align_BBB01-BBB14_withSV1_excl.nex.con.png|thumb|center|700px|alt=Phylogenetic tree of 15 B. burgdorferi strains.|Phylogenetic tree of 15 ''B. burgdorferi'' strains.]] | ||
{| style="text-align: left; width: 1000px;" border="1" cellpadding="2" cellspacing="2" frame="border" | Download alignment archives (tar.gz, gzipped-tar format) | ||
| colspan="1" rowspan="2" style="vertical-align: top;" | <span style="font-weight: bold;">Alignment type | {| style="text-align: left; width: 1000px;" border="1" cellpadding="2" cellspacing="2" frame="border" | ||
| colspan="3" rowspan="1" style="vertical-align: top; font-weight: bold;" | Replicon (Ortholog count) | | colspan="1" rowspan="2" style="vertical-align: top;" | <span style="font-weight: bold;">Alignment type | ||
| colspan="3" rowspan="1" style="vertical-align: top; font-weight: bold;" | Replicon (Ortholog count) | |||
|- | |- | ||
| style="vertical-align: top; text-align: center;" | <span style="text-decoration: underline;">Main</span | | style="vertical-align: top; text-align: center;" | <span style="text-decoration: underline;">Main</span> | ||
(748) | (748) | ||
| style="vertical-align: top; text-align: center;" | <span style="text-decoration: underline;">cp26</span | | style="vertical-align: top; text-align: center;" | <span style="text-decoration: underline;">cp26</span> | ||
(26) | (26) | ||
| style="vertical-align: top; text-align: center;" | <span style="text-decoration: underline;">lp54</span | | style="vertical-align: top; text-align: center;" | <span style="text-decoration: underline;">lp54</span> | ||
(61) | (61) | ||
|- | |- | ||
| colspan="1" rowspan="2" style="vertical-align: top;" | Intraspecific | | colspan="1" rowspan="2" style="vertical-align: top;" | Intraspecific | ||
| style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/mainchr_nuc.tar.gz nuc] | | style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/mainchr_nuc.tar.gz nuc] | ||
| style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/cp26_nuc.tar.gz nuc] | | style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/cp26_nuc.tar.gz nuc] | ||
| style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/lp54_nuc.tar.gz nuc] | | style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/lp54_nuc.tar.gz nuc] | ||
|- | |- | ||
| style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/mainchr_pep.tar.gz pep] | | style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/mainchr_pep.tar.gz pep] | ||
| style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/cp26_pep.tar.gz pep] | | style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/cp26_pep.tar.gz pep] | ||
| style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/lp54_pep.tar.gz pep] | | style="vertical-align: top; text-align: center;" | [http://borreliagenome.org/orf_data/lp54_pep.tar.gz pep] | ||
|- | |- | ||
| colspan="1" rowspan="2" style="vertical-align: top;" | Interspecific | | colspan="1" rowspan="2" style="vertical-align: top;" | Interspecific | ||
| style="vertical-align: top; text-align: center;" | nuc | | style="vertical-align: top; text-align: center;" | nuc | ||
| style="vertical-align: top; text-align: center;" | nuc | | style="vertical-align: top; text-align: center;" | nuc | ||
| style="vertical-align: top; text-align: center;" | nuc | | style="vertical-align: top; text-align: center;" | nuc | ||
|- | |- | ||
| style="vertical-align: top; text-align: center;" | pep | | style="vertical-align: top; text-align: center;" | pep | ||
| style="vertical-align: top; text-align: center;" | pep | | style="vertical-align: top; text-align: center;" | pep | ||
| style="vertical-align: top; text-align: center;" | pep | | style="vertical-align: top; text-align: center;" | pep | ||
|} | |} | ||
==References== | ==References== | ||
* '''Schutzer SE, Fraser-Liggett CM, Casjens SR, Qiu WG, Dunn JJ, Mongodin EF, Luft BJ.''' Whole Genome Sequences of Thirteen Isolates of ''Borrelia burgdorferi''. Journal of | * '''Schutzer SE, Fraser-Liggett CM, Casjens SR, Qiu WG, Dunn JJ, Mongodin EF, Luft BJ.''' Whole Genome Sequences of Thirteen Isolates of ''Borrelia burgdorferi''. Journal of Bacteriology 2010 | ||
* '''Fraser CM, Casjens S, Huang WM, Sutton GG, Clayton R, Lathigra R, White O, Ketchum KA, Dodson R, Hickey EK, Gwinn M, Dougherty B, Tomb JF, Fleischmann RD, Richardson D, Peterson J, Kerlavage AR, Quackenbush J, Salzberg S, Hanson M, van Vugt R, Palmer N, Adams MD, Gocayne J, Weidman J, Utterback T, Watthey L, McDonald L, Artiach P, Bowman C, Garland S, Fuji C, Cotton MD, Horst K, Roberts K, Hatch B, Smith HO, Venter JC.''' Genomic sequence of a Lyme disease spirochaete, ''Borrelia burgdorferi''. Nature 1997, 390:580-6. | * '''Fraser CM, Casjens S, Huang WM, Sutton GG, Clayton R, Lathigra R, White O, Ketchum KA, Dodson R, Hickey EK, Gwinn M, Dougherty B, Tomb JF, Fleischmann RD, Richardson D, Peterson J, Kerlavage AR, Quackenbush J, Salzberg S, Hanson M, van Vugt R, Palmer N, Adams MD, Gocayne J, Weidman J, Utterback T, Watthey L, McDonald L, Artiach P, Bowman C, Garland S, Fuji C, Cotton MD, Horst K, Roberts K, Hatch B, Smith HO, Venter JC.''' Genomic sequence of a Lyme disease spirochaete, ''Borrelia burgdorferi''. Nature 1997, 390:580-6. | ||
Latest revision as of 18:37, 13 January 2013
Download alignment archives (tar.gz, gzipped-tar format)
| Alignment type | Replicon (Ortholog count) | ||
| Main
(748) |
cp26
(26) |
lp54
(61) | |
| Intraspecific | nuc | nuc | nuc |
| pep | pep | pep | |
| Interspecific | nuc | nuc | nuc |
| pep | pep | pep | |
References
- Schutzer SE, Fraser-Liggett CM, Casjens SR, Qiu WG, Dunn JJ, Mongodin EF, Luft BJ. Whole Genome Sequences of Thirteen Isolates of Borrelia burgdorferi. Journal of Bacteriology 2010
- Fraser CM, Casjens S, Huang WM, Sutton GG, Clayton R, Lathigra R, White O, Ketchum KA, Dodson R, Hickey EK, Gwinn M, Dougherty B, Tomb JF, Fleischmann RD, Richardson D, Peterson J, Kerlavage AR, Quackenbush J, Salzberg S, Hanson M, van Vugt R, Palmer N, Adams MD, Gocayne J, Weidman J, Utterback T, Watthey L, McDonald L, Artiach P, Bowman C, Garland S, Fuji C, Cotton MD, Horst K, Roberts K, Hatch B, Smith HO, Venter JC. Genomic sequence of a Lyme disease spirochaete, Borrelia burgdorferi. Nature 1997, 390:580-6.