Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.4376.1

Experiment: Parafilmed volatile agar plate with no fungus

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Only strains with sufficient reads to estimate fitness are shown, but the strain fitness values are still rather noisy and may be biased towards zero. Strains near the edge of a gene are not shown as being associated with that gene (they are in grey). Strains in the central 10-90% of a gene are color coded by the insertion's strand. Usually, "+" means that the selectable marker is encoded on the forward strand, i.e., transcribed rightward.

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500 ntXcc-8004.4373.1 and Xcc-8004.4374.1 are separated by 4 nucleotidesXcc-8004.4374.1 and Xcc-8004.4375.1 are separated by 16 nucleotidesXcc-8004.4375.1 and Xcc-8004.4376.1 overlap by 4 nucleotidesXcc-8004.4376.1 and Xcc-8004.4377.1 are separated by 22 nucleotidesXcc-8004.4377.1 and Xcc-8004.4378.1 are separated by 37 nucleotides Xcc-8004.4373.1: Xcc-8004.4373.1 - LppC putative lipoprotein, at 4,183,658 to 4,185,388 Xcc-8004.4373.1 Xcc-8004.4374.1: Xcc-8004.4374.1 - Predicted endonuclease distantly related to archaeal Holliday junction resolvase, at 4,185,393 to 4,185,761 Xcc-8004.4374.1 Xcc-8004.4375.1: Xcc-8004.4375.1 - Putative membrane-bound metal-dependent hydrolases, at 4,185,778 to 4,186,317 Xcc-8004.4375.1 Xcc-8004.4376.1: Xcc-8004.4376.1 - D-2-hydroxyglutarate dehydrogenase, at 4,186,314 to 4,187,708 Xcc-8004.4376.1 Xcc-8004.4377.1: Xcc-8004.4377.1 - putative; ORF located using Glimmer/Genemark, at 4,187,731 to 4,188,330 Xcc-8004.4377.1 Xcc-8004.4378.1: Xcc-8004.4378.1 - sensor histidine kinase, at 4,188,368 to 4,189,084 Xcc-8004.4378.1 Position (kb) 4186 4187 4188Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 4185.493 kb on - strand, within Xcc-8004.4374.1at 4185.608 kb on + strand, within Xcc-8004.4374.1at 4185.626 kb on - strand, within Xcc-8004.4374.1at 4186.046 kb on + strand, within Xcc-8004.4375.1at 4186.047 kb on - strand, within Xcc-8004.4375.1at 4186.047 kb on - strand, within Xcc-8004.4375.1at 4186.200 kb on + strand, within Xcc-8004.4375.1at 4186.201 kb on - strand, within Xcc-8004.4375.1at 4186.788 kb on + strand, within Xcc-8004.4376.1at 4186.866 kb on + strand, within Xcc-8004.4376.1at 4186.866 kb on + strand, within Xcc-8004.4376.1at 4186.866 kb on + strand, within Xcc-8004.4376.1at 4186.867 kb on - strand, within Xcc-8004.4376.1at 4187.181 kb on + strand, within Xcc-8004.4376.1at 4187.181 kb on + strand, within Xcc-8004.4376.1at 4187.463 kb on + strand, within Xcc-8004.4376.1at 4187.463 kb on + strand, within Xcc-8004.4376.1at 4187.463 kb on + strand, within Xcc-8004.4376.1at 4187.463 kb on + strand, within Xcc-8004.4376.1at 4187.463 kb on + strand, within Xcc-8004.4376.1at 4187.463 kb on + strand, within Xcc-8004.4376.1at 4187.464 kb on - strand, within Xcc-8004.4376.1at 4187.464 kb on - strand, within Xcc-8004.4376.1at 4187.464 kb on - strand, within Xcc-8004.4376.1at 4187.530 kb on + strand, within Xcc-8004.4376.1at 4187.721 kb on + strandat 4187.721 kb on + strandat 4187.721 kb on + strandat 4187.721 kb on + strandat 4187.721 kb on + strandat 4187.722 kb on - strandat 4187.886 kb on + strand, within Xcc-8004.4377.1at 4187.886 kb on + strand, within Xcc-8004.4377.1at 4187.887 kb on - strand, within Xcc-8004.4377.1at 4187.976 kb on - strand, within Xcc-8004.4377.1at 4188.013 kb on + strand, within Xcc-8004.4377.1at 4188.013 kb on + strand, within Xcc-8004.4377.1at 4188.198 kb on + strand, within Xcc-8004.4377.1at 4188.199 kb on - strand, within Xcc-8004.4377.1at 4188.286 kb on + strandat 4188.287 kb on - strandat 4188.331 kb on + strandat 4188.331 kb on + strandat 4188.331 kb on + strandat 4188.332 kb on - strandat 4188.332 kb on - strandat 4188.420 kb on + strandat 4188.421 kb on - strandat 4188.421 kb on - strandat 4188.483 kb on + strand, within Xcc-8004.4378.1at 4188.585 kb on + strand, within Xcc-8004.4378.1at 4188.649 kb on + strand, within Xcc-8004.4378.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with no fungus
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4,185,493 - Xcc-8004.4374.1 0.27 +0.1
4,185,608 + Xcc-8004.4374.1 0.58 +0.0
4,185,626 - Xcc-8004.4374.1 0.63 -0.1
4,186,046 + Xcc-8004.4375.1 0.50 -0.7
4,186,047 - Xcc-8004.4375.1 0.50 -1.1
4,186,047 - Xcc-8004.4375.1 0.50 +0.2
4,186,200 + Xcc-8004.4375.1 0.78 -1.3
4,186,201 - Xcc-8004.4375.1 0.78 -0.6
4,186,788 + Xcc-8004.4376.1 0.34 -1.2
4,186,866 + Xcc-8004.4376.1 0.40 -1.0
4,186,866 + Xcc-8004.4376.1 0.40 +0.2
4,186,866 + Xcc-8004.4376.1 0.40 -0.7
4,186,867 - Xcc-8004.4376.1 0.40 -0.9
4,187,181 + Xcc-8004.4376.1 0.62 -2.1
4,187,181 + Xcc-8004.4376.1 0.62 -0.6
4,187,463 + Xcc-8004.4376.1 0.82 +0.4
4,187,463 + Xcc-8004.4376.1 0.82 -0.3
4,187,463 + Xcc-8004.4376.1 0.82 -2.1
4,187,463 + Xcc-8004.4376.1 0.82 -0.4
4,187,463 + Xcc-8004.4376.1 0.82 +2.6
4,187,463 + Xcc-8004.4376.1 0.82 -0.7
4,187,464 - Xcc-8004.4376.1 0.82 -3.0
4,187,464 - Xcc-8004.4376.1 0.82 -3.1
4,187,464 - Xcc-8004.4376.1 0.82 -0.9
4,187,530 + Xcc-8004.4376.1 0.87 -0.8
4,187,721 + -3.0
4,187,721 + +0.8
4,187,721 + -1.8
4,187,721 + -1.1
4,187,721 + +0.9
4,187,722 - +0.3
4,187,886 + Xcc-8004.4377.1 0.26 -0.3
4,187,886 + Xcc-8004.4377.1 0.26 -0.3
4,187,887 - Xcc-8004.4377.1 0.26 -3.0
4,187,976 - Xcc-8004.4377.1 0.41 -0.2
4,188,013 + Xcc-8004.4377.1 0.47 -2.3
4,188,013 + Xcc-8004.4377.1 0.47 -2.3
4,188,198 + Xcc-8004.4377.1 0.78 +0.6
4,188,199 - Xcc-8004.4377.1 0.78 +4.0
4,188,286 + +1.2
4,188,287 - -0.4
4,188,331 + +1.8
4,188,331 + +1.5
4,188,331 + -0.6
4,188,332 - +1.1
4,188,332 - -1.1
4,188,420 + -1.2
4,188,421 - -0.1
4,188,421 - -0.2
4,188,483 + Xcc-8004.4378.1 0.16 +2.3
4,188,585 + Xcc-8004.4378.1 0.30 +0.2
4,188,649 + Xcc-8004.4378.1 0.39 -1.3

Or see this region's nucleotide sequence