Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1562.1

Experiment: Pectin from apple 2 g/L (C)

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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-8004.1559.1 and Xcc-8004.1561.1 are separated by 32 nucleotidesXcc-8004.1561.1 and Xcc-8004.1562.1 overlap by 4 nucleotidesXcc-8004.1562.1 and Xcc-8004.1563.1 are separated by 34 nucleotidesXcc-8004.1563.1 and Xcc-8004.1564.1 overlap by 4 nucleotides Xcc-8004.1559.1: Xcc-8004.1559.1 - Adenosylmethionine-8-amino-7-oxononanoate aminotransferase (EC 2.6.1.62), at 1,499,366 to 1,500,784 Xcc-8004.1559.1 Xcc-8004.1561.1: Xcc-8004.1561.1 - ADP compounds hydrolase NudE (EC 3.6.1.-), at 1,500,817 to 1,501,374 Xcc-8004.1561.1 Xcc-8004.1562.1: Xcc-8004.1562.1 - 3'(2'),5'-bisphosphate nucleotidase (EC 3.1.3.7), at 1,501,371 to 1,502,171 Xcc-8004.1562.1 Xcc-8004.1563.1: Xcc-8004.1563.1 - Nucleoside triphosphate pyrophosphohydrolase MazG (EC 3.6.1.8), at 1,502,206 to 1,503,030 Xcc-8004.1563.1 Xcc-8004.1564.1: Xcc-8004.1564.1 - Protein of unknown function UPF0060, at 1,503,027 to 1,503,362 Xcc-8004.1564.1 Position (kb) 1501 1502 1503Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1500.385 kb on - strand, within Xcc-8004.1559.1at 1500.588 kb on + strand, within Xcc-8004.1559.1at 1500.589 kb on - strand, within Xcc-8004.1559.1at 1500.651 kb on - strandat 1500.651 kb on - strandat 1500.752 kb on + strandat 1500.790 kb on + strandat 1500.790 kb on + strandat 1500.790 kb on + strandat 1500.791 kb on - strandat 1500.796 kb on - strandat 1500.931 kb on + strand, within Xcc-8004.1561.1at 1500.932 kb on - strand, within Xcc-8004.1561.1at 1501.016 kb on - strand, within Xcc-8004.1561.1at 1501.037 kb on - strand, within Xcc-8004.1561.1at 1501.124 kb on - strand, within Xcc-8004.1561.1at 1501.170 kb on + strand, within Xcc-8004.1561.1at 1501.170 kb on + strand, within Xcc-8004.1561.1at 1501.170 kb on + strand, within Xcc-8004.1561.1at 1501.171 kb on - strand, within Xcc-8004.1561.1at 1501.171 kb on - strand, within Xcc-8004.1561.1at 1501.171 kb on - strand, within Xcc-8004.1561.1at 1501.171 kb on - strand, within Xcc-8004.1561.1at 1501.174 kb on + strand, within Xcc-8004.1561.1at 1501.174 kb on + strand, within Xcc-8004.1561.1at 1501.174 kb on + strand, within Xcc-8004.1561.1at 1501.174 kb on + strand, within Xcc-8004.1561.1at 1501.174 kb on + strand, within Xcc-8004.1561.1at 1501.174 kb on + strand, within Xcc-8004.1561.1at 1501.175 kb on - strand, within Xcc-8004.1561.1at 1501.175 kb on - strand, within Xcc-8004.1561.1at 1501.175 kb on - strand, within Xcc-8004.1561.1at 1501.175 kb on - strand, within Xcc-8004.1561.1at 1501.175 kb on - strand, within Xcc-8004.1561.1at 1501.176 kb on + strand, within Xcc-8004.1561.1at 1501.176 kb on + strand, within Xcc-8004.1561.1at 1501.176 kb on + strand, within Xcc-8004.1561.1at 1501.177 kb on - strand, within Xcc-8004.1561.1at 1501.177 kb on - strand, within Xcc-8004.1561.1at 1501.177 kb on - strand, within Xcc-8004.1561.1at 1501.177 kb on - strand, within Xcc-8004.1561.1at 1501.177 kb on - strand, within Xcc-8004.1561.1at 1501.611 kb on + strand, within Xcc-8004.1562.1at 1501.624 kb on - strand, within Xcc-8004.1562.1at 1501.624 kb on - strand, within Xcc-8004.1562.1at 1501.624 kb on - strand, within Xcc-8004.1562.1at 1501.981 kb on - strand, within Xcc-8004.1562.1at 1502.169 kb on + strandat 1502.169 kb on + strandat 1502.169 kb on + strandat 1502.169 kb on + strandat 1502.169 kb on + strandat 1502.170 kb on - strandat 1502.170 kb on - strandat 1502.170 kb on - strandat 1502.170 kb on - strandat 1502.170 kb on - strandat 1502.326 kb on + strand, within Xcc-8004.1563.1at 1502.326 kb on + strand, within Xcc-8004.1563.1at 1502.344 kb on + strand, within Xcc-8004.1563.1at 1502.345 kb on - strand, within Xcc-8004.1563.1at 1502.932 kb on + strand, within Xcc-8004.1563.1at 1502.932 kb on + strand, within Xcc-8004.1563.1at 1502.932 kb on + strand, within Xcc-8004.1563.1at 1502.932 kb on + strand, within Xcc-8004.1563.1at 1502.932 kb on + strand, within Xcc-8004.1563.1at 1502.932 kb on + strand, within Xcc-8004.1563.1at 1502.933 kb on - strand, within Xcc-8004.1563.1at 1502.933 kb on - strand, within Xcc-8004.1563.1at 1502.933 kb on - strand, within Xcc-8004.1563.1at 1503.093 kb on + strand, within Xcc-8004.1564.1at 1503.102 kb on + strand, within Xcc-8004.1564.1at 1503.103 kb on - strand, within Xcc-8004.1564.1at 1503.103 kb on - strand, within Xcc-8004.1564.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Pectin from apple 2 g/L (C)
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1,500,385 - Xcc-8004.1559.1 0.72 +0.5
1,500,588 + Xcc-8004.1559.1 0.86 -0.1
1,500,589 - Xcc-8004.1559.1 0.86 +0.5
1,500,651 - +0.9
1,500,651 - -0.1
1,500,752 + -0.4
1,500,790 + +1.0
1,500,790 + -0.2
1,500,790 + -0.1
1,500,791 - -1.0
1,500,796 - -0.0
1,500,931 + Xcc-8004.1561.1 0.20 -0.8
1,500,932 - Xcc-8004.1561.1 0.21 +1.2
1,501,016 - Xcc-8004.1561.1 0.36 -0.7
1,501,037 - Xcc-8004.1561.1 0.39 -2.4
1,501,124 - Xcc-8004.1561.1 0.55 -1.7
1,501,170 + Xcc-8004.1561.1 0.63 -0.4
1,501,170 + Xcc-8004.1561.1 0.63 +0.1
1,501,170 + Xcc-8004.1561.1 0.63 +0.2
1,501,171 - Xcc-8004.1561.1 0.63 -1.8
1,501,171 - Xcc-8004.1561.1 0.63 -1.7
1,501,171 - Xcc-8004.1561.1 0.63 -1.0
1,501,171 - Xcc-8004.1561.1 0.63 -2.6
1,501,174 + Xcc-8004.1561.1 0.64 +0.6
1,501,174 + Xcc-8004.1561.1 0.64 -0.2
1,501,174 + Xcc-8004.1561.1 0.64 +0.1
1,501,174 + Xcc-8004.1561.1 0.64 +0.3
1,501,174 + Xcc-8004.1561.1 0.64 +0.3
1,501,174 + Xcc-8004.1561.1 0.64 +1.8
1,501,175 - Xcc-8004.1561.1 0.64 +0.2
1,501,175 - Xcc-8004.1561.1 0.64 -0.8
1,501,175 - Xcc-8004.1561.1 0.64 -0.9
1,501,175 - Xcc-8004.1561.1 0.64 -2.2
1,501,175 - Xcc-8004.1561.1 0.64 -1.7
1,501,176 + Xcc-8004.1561.1 0.64 -1.2
1,501,176 + Xcc-8004.1561.1 0.64 +1.1
1,501,176 + Xcc-8004.1561.1 0.64 +0.3
1,501,177 - Xcc-8004.1561.1 0.65 -0.7
1,501,177 - Xcc-8004.1561.1 0.65 -2.3
1,501,177 - Xcc-8004.1561.1 0.65 -1.7
1,501,177 - Xcc-8004.1561.1 0.65 -1.4
1,501,177 - Xcc-8004.1561.1 0.65 -3.4
1,501,611 + Xcc-8004.1562.1 0.30 -0.6
1,501,624 - Xcc-8004.1562.1 0.32 -3.1
1,501,624 - Xcc-8004.1562.1 0.32 -2.0
1,501,624 - Xcc-8004.1562.1 0.32 -0.5
1,501,981 - Xcc-8004.1562.1 0.76 -1.9
1,502,169 + -0.3
1,502,169 + -1.2
1,502,169 + +0.2
1,502,169 + +1.0
1,502,169 + -0.3
1,502,170 - -1.2
1,502,170 - +0.2
1,502,170 - -0.2
1,502,170 - +0.3
1,502,170 - -0.2
1,502,326 + Xcc-8004.1563.1 0.15 -1.8
1,502,326 + Xcc-8004.1563.1 0.15 +0.4
1,502,344 + Xcc-8004.1563.1 0.17 +0.2
1,502,345 - Xcc-8004.1563.1 0.17 +0.6
1,502,932 + Xcc-8004.1563.1 0.88 +0.0
1,502,932 + Xcc-8004.1563.1 0.88 +0.5
1,502,932 + Xcc-8004.1563.1 0.88 +0.5
1,502,932 + Xcc-8004.1563.1 0.88 -0.4
1,502,932 + Xcc-8004.1563.1 0.88 +0.7
1,502,932 + Xcc-8004.1563.1 0.88 +0.2
1,502,933 - Xcc-8004.1563.1 0.88 +0.4
1,502,933 - Xcc-8004.1563.1 0.88 -2.0
1,502,933 - Xcc-8004.1563.1 0.88 -0.8
1,503,093 + Xcc-8004.1564.1 0.20 +1.0
1,503,102 + Xcc-8004.1564.1 0.22 +1.3
1,503,103 - Xcc-8004.1564.1 0.23 -0.1
1,503,103 - Xcc-8004.1564.1 0.23 +2.6

Or see this region's nucleotide sequence