Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.3689.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant

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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-8004.3688.1 and Xcc-8004.3689.1 are separated by 15 nucleotidesXcc-8004.3689.1 and Xcc-8004.3690.1 are separated by 125 nucleotides Xcc-8004.3688.1: Xcc-8004.3688.1 - Branched-chain acyl-CoA dehydrogenase (EC 1.3.99.12), at 3,566,659 to 3,567,840 Xcc-8004.3688.1 Xcc-8004.3689.1: Xcc-8004.3689.1 - Methylmalonate-semialdehyde dehydrogenase (EC 1.2.1.27), at 3,567,856 to 3,569,361 Xcc-8004.3689.1 Xcc-8004.3690.1: Xcc-8004.3690.1 - Transcriptional regulator, XRE family protein, at 3,569,487 to 3,570,869 Xcc-8004.3690.1 Position (kb) 3567 3568 3569 3570Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 3567.029 kb on + strand, within Xcc-8004.3688.1at 3567.030 kb on - strand, within Xcc-8004.3688.1at 3567.237 kb on - strand, within Xcc-8004.3688.1at 3567.237 kb on - strand, within Xcc-8004.3688.1at 3567.374 kb on + strand, within Xcc-8004.3688.1at 3567.375 kb on - strand, within Xcc-8004.3688.1at 3567.375 kb on - strand, within Xcc-8004.3688.1at 3567.375 kb on - strand, within Xcc-8004.3688.1at 3567.375 kb on - strand, within Xcc-8004.3688.1at 3567.375 kb on - strand, within Xcc-8004.3688.1at 3567.450 kb on - strand, within Xcc-8004.3688.1at 3567.450 kb on - strand, within Xcc-8004.3688.1at 3567.515 kb on + strand, within Xcc-8004.3688.1at 3567.515 kb on + strand, within Xcc-8004.3688.1at 3567.516 kb on - strand, within Xcc-8004.3688.1at 3567.516 kb on - strand, within Xcc-8004.3688.1at 3567.653 kb on + strand, within Xcc-8004.3688.1at 3567.653 kb on + strand, within Xcc-8004.3688.1at 3567.653 kb on + strand, within Xcc-8004.3688.1at 3567.653 kb on + strand, within Xcc-8004.3688.1at 3567.654 kb on - strand, within Xcc-8004.3688.1at 3567.654 kb on - strand, within Xcc-8004.3688.1at 3567.852 kb on - strandat 3567.852 kb on - strandat 3567.857 kb on + strandat 3567.857 kb on + strandat 3567.857 kb on + strandat 3567.857 kb on + strandat 3567.857 kb on + strandat 3567.857 kb on + strandat 3567.858 kb on - strandat 3567.858 kb on - strandat 3567.858 kb on - strandat 3567.858 kb on - strandat 3567.858 kb on - strandat 3567.858 kb on - strandat 3567.858 kb on - strandat 3567.858 kb on - strandat 3567.941 kb on + strandat 3567.941 kb on + strandat 3567.941 kb on + strandat 3567.942 kb on - strandat 3567.942 kb on - strandat 3568.068 kb on + strand, within Xcc-8004.3689.1at 3568.107 kb on + strand, within Xcc-8004.3689.1at 3568.108 kb on - strand, within Xcc-8004.3689.1at 3568.217 kb on + strand, within Xcc-8004.3689.1at 3568.218 kb on - strand, within Xcc-8004.3689.1at 3568.218 kb on - strand, within Xcc-8004.3689.1at 3568.650 kb on - strand, within Xcc-8004.3689.1at 3568.650 kb on - strand, within Xcc-8004.3689.1at 3568.845 kb on + strand, within Xcc-8004.3689.1at 3568.845 kb on + strand, within Xcc-8004.3689.1at 3568.845 kb on + strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.846 kb on - strand, within Xcc-8004.3689.1at 3568.930 kb on + strand, within Xcc-8004.3689.1at 3568.930 kb on + strand, within Xcc-8004.3689.1at 3568.930 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.949 kb on + strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3568.950 kb on - strand, within Xcc-8004.3689.1at 3569.135 kb on + strand, within Xcc-8004.3689.1at 3569.135 kb on + strand, within Xcc-8004.3689.1at 3569.135 kb on + strand, within Xcc-8004.3689.1at 3569.136 kb on - strand, within Xcc-8004.3689.1at 3569.136 kb on - strand, within Xcc-8004.3689.1at 3569.136 kb on - strand, within Xcc-8004.3689.1at 3569.405 kb on + strandat 3569.454 kb on + strandat 3569.604 kb on + strandat 3569.604 kb on + strandat 3569.604 kb on + strandat 3569.604 kb on + strandat 3569.605 kb on - strandat 3569.605 kb on - strandat 3569.605 kb on - strandat 3569.743 kb on + strand, within Xcc-8004.3690.1at 3569.743 kb on + strand, within Xcc-8004.3690.1at 3569.743 kb on + strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.744 kb on - strand, within Xcc-8004.3690.1at 3569.843 kb on + strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.844 kb on - strand, within Xcc-8004.3690.1at 3569.940 kb on + strand, within Xcc-8004.3690.1at 3569.941 kb on - strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.961 kb on + strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.962 kb on - strand, within Xcc-8004.3690.1at 3569.997 kb on + strand, within Xcc-8004.3690.1at 3570.294 kb on + strand, within Xcc-8004.3690.1at 3570.295 kb on - strand, within Xcc-8004.3690.1at 3570.295 kb on - strand, within Xcc-8004.3690.1at 3570.321 kb on + strand, within Xcc-8004.3690.1at 3570.321 kb on + strand, within Xcc-8004.3690.1at 3570.322 kb on - strand, within Xcc-8004.3690.1at 3570.322 kb on - strand, within Xcc-8004.3690.1at 3570.322 kb on - strand, within Xcc-8004.3690.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI tmk3mutant
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3,567,029 + Xcc-8004.3688.1 0.31 +0.3
3,567,030 - Xcc-8004.3688.1 0.31 -1.6
3,567,237 - Xcc-8004.3688.1 0.49 -0.1
3,567,237 - Xcc-8004.3688.1 0.49 -0.1
3,567,374 + Xcc-8004.3688.1 0.60 -0.8
3,567,375 - Xcc-8004.3688.1 0.61 -0.4
3,567,375 - Xcc-8004.3688.1 0.61 -1.8
3,567,375 - Xcc-8004.3688.1 0.61 +0.1
3,567,375 - Xcc-8004.3688.1 0.61 -2.8
3,567,375 - Xcc-8004.3688.1 0.61 -1.9
3,567,450 - Xcc-8004.3688.1 0.67 +0.6
3,567,450 - Xcc-8004.3688.1 0.67 -0.1
3,567,515 + Xcc-8004.3688.1 0.72 -0.3
3,567,515 + Xcc-8004.3688.1 0.72 -0.5
3,567,516 - Xcc-8004.3688.1 0.73 -1.2
3,567,516 - Xcc-8004.3688.1 0.73 -2.1
3,567,653 + Xcc-8004.3688.1 0.84 +2.6
3,567,653 + Xcc-8004.3688.1 0.84 -1.0
3,567,653 + Xcc-8004.3688.1 0.84 -1.4
3,567,653 + Xcc-8004.3688.1 0.84 -2.1
3,567,654 - Xcc-8004.3688.1 0.84 -1.2
3,567,654 - Xcc-8004.3688.1 0.84 -0.8
3,567,852 - -0.2
3,567,852 - -0.4
3,567,857 + -1.0
3,567,857 + +0.2
3,567,857 + -1.3
3,567,857 + -0.1
3,567,857 + -0.3
3,567,857 + -1.8
3,567,858 - -0.0
3,567,858 - -0.1
3,567,858 - -0.7
3,567,858 - -1.7
3,567,858 - +0.5
3,567,858 - +1.9
3,567,858 - -1.5
3,567,858 - -1.0
3,567,941 + -1.0
3,567,941 + -0.8
3,567,941 + -0.8
3,567,942 - -2.0
3,567,942 - +0.0
3,568,068 + Xcc-8004.3689.1 0.14 -1.7
3,568,107 + Xcc-8004.3689.1 0.17 -0.6
3,568,108 - Xcc-8004.3689.1 0.17 -0.6
3,568,217 + Xcc-8004.3689.1 0.24 +0.4
3,568,218 - Xcc-8004.3689.1 0.24 -0.2
3,568,218 - Xcc-8004.3689.1 0.24 -1.2
3,568,650 - Xcc-8004.3689.1 0.53 -1.1
3,568,650 - Xcc-8004.3689.1 0.53 -1.3
3,568,845 + Xcc-8004.3689.1 0.66 -0.7
3,568,845 + Xcc-8004.3689.1 0.66 -1.5
3,568,845 + Xcc-8004.3689.1 0.66 -0.5
3,568,846 - Xcc-8004.3689.1 0.66 -1.5
3,568,846 - Xcc-8004.3689.1 0.66 -1.5
3,568,846 - Xcc-8004.3689.1 0.66 +0.1
3,568,846 - Xcc-8004.3689.1 0.66 -1.3
3,568,846 - Xcc-8004.3689.1 0.66 -1.4
3,568,930 + Xcc-8004.3689.1 0.71 -0.3
3,568,930 + Xcc-8004.3689.1 0.71 +0.5
3,568,930 + Xcc-8004.3689.1 0.71 +0.2
3,568,949 + Xcc-8004.3689.1 0.73 -1.4
3,568,949 + Xcc-8004.3689.1 0.73 +1.2
3,568,949 + Xcc-8004.3689.1 0.73 -0.7
3,568,949 + Xcc-8004.3689.1 0.73 +0.9
3,568,949 + Xcc-8004.3689.1 0.73 +1.6
3,568,949 + Xcc-8004.3689.1 0.73 -0.3
3,568,949 + Xcc-8004.3689.1 0.73 -0.2
3,568,949 + Xcc-8004.3689.1 0.73 -0.7
3,568,949 + Xcc-8004.3689.1 0.73 -1.8
3,568,950 - Xcc-8004.3689.1 0.73 +1.0
3,568,950 - Xcc-8004.3689.1 0.73 -1.2
3,568,950 - Xcc-8004.3689.1 0.73 -0.9
3,568,950 - Xcc-8004.3689.1 0.73 -0.3
3,568,950 - Xcc-8004.3689.1 0.73 -3.1
3,568,950 - Xcc-8004.3689.1 0.73 +1.9
3,568,950 - Xcc-8004.3689.1 0.73 -3.8
3,569,135 + Xcc-8004.3689.1 0.85 -1.2
3,569,135 + Xcc-8004.3689.1 0.85 -4.0
3,569,135 + Xcc-8004.3689.1 0.85 -1.0
3,569,136 - Xcc-8004.3689.1 0.85 -1.1
3,569,136 - Xcc-8004.3689.1 0.85 -1.5
3,569,136 - Xcc-8004.3689.1 0.85 -2.5
3,569,405 + -1.0
3,569,454 + +0.8
3,569,604 + -0.6
3,569,604 + -0.3
3,569,604 + -0.5
3,569,604 + -1.1
3,569,605 - +1.9
3,569,605 - -0.8
3,569,605 - +3.0
3,569,743 + Xcc-8004.3690.1 0.19 -0.4
3,569,743 + Xcc-8004.3690.1 0.19 -0.2
3,569,743 + Xcc-8004.3690.1 0.19 -0.3
3,569,744 - Xcc-8004.3690.1 0.19 +0.7
3,569,744 - Xcc-8004.3690.1 0.19 -0.9
3,569,744 - Xcc-8004.3690.1 0.19 -1.0
3,569,744 - Xcc-8004.3690.1 0.19 -0.3
3,569,843 + Xcc-8004.3690.1 0.26 -1.5
3,569,844 - Xcc-8004.3690.1 0.26 -0.2
3,569,844 - Xcc-8004.3690.1 0.26 -0.4
3,569,844 - Xcc-8004.3690.1 0.26 +0.4
3,569,844 - Xcc-8004.3690.1 0.26 +0.3
3,569,940 + Xcc-8004.3690.1 0.33 -0.6
3,569,941 - Xcc-8004.3690.1 0.33 -1.8
3,569,961 + Xcc-8004.3690.1 0.34 -1.2
3,569,961 + Xcc-8004.3690.1 0.34 -0.0
3,569,961 + Xcc-8004.3690.1 0.34 -1.5
3,569,961 + Xcc-8004.3690.1 0.34 -0.5
3,569,961 + Xcc-8004.3690.1 0.34 -0.7
3,569,961 + Xcc-8004.3690.1 0.34 -0.2
3,569,961 + Xcc-8004.3690.1 0.34 -2.2
3,569,961 + Xcc-8004.3690.1 0.34 -0.2
3,569,962 - Xcc-8004.3690.1 0.34 -0.6
3,569,962 - Xcc-8004.3690.1 0.34 +0.3
3,569,962 - Xcc-8004.3690.1 0.34 -1.5
3,569,962 - Xcc-8004.3690.1 0.34 -0.5
3,569,962 - Xcc-8004.3690.1 0.34 -1.0
3,569,997 + Xcc-8004.3690.1 0.37 -2.4
3,570,294 + Xcc-8004.3690.1 0.58 -0.2
3,570,295 - Xcc-8004.3690.1 0.58 +0.8
3,570,295 - Xcc-8004.3690.1 0.58 +0.5
3,570,321 + Xcc-8004.3690.1 0.60 -0.1
3,570,321 + Xcc-8004.3690.1 0.60 +1.6
3,570,322 - Xcc-8004.3690.1 0.60 -0.5
3,570,322 - Xcc-8004.3690.1 0.60 -1.0
3,570,322 - Xcc-8004.3690.1 0.60 -2.9

Or see this region's nucleotide sequence