Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1050.1

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-8004.1049.1 and Xcc-8004.1050.1 overlap by 38 nucleotidesXcc-8004.1050.1 and Xcc-8004.1052.1 are separated by 32 nucleotidesXcc-8004.1052.1 and Xcc-8004.1053.1 overlap by 29 nucleotides Xcc-8004.1049.1: Xcc-8004.1049.1 - 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33), at 1,002,079 to 1,003,557 Xcc-8004.1049.1 Xcc-8004.1050.1: Xcc-8004.1050.1 - 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33), at 1,003,520 to 1,004,269 Xcc-8004.1050.1 Xcc-8004.1052.1: Xcc-8004.1052.1 - hypothetical protein, at 1,004,302 to 1,005,051 Xcc-8004.1052.1 Xcc-8004.1053.1: Xcc-8004.1053.1 - 3-isopropylmalate dehydrogenase (EC 1.1.1.85), at 1,005,023 to 1,006,162 Xcc-8004.1053.1 Position (kb) 1003 1004 1005Strain fitness (log2 ratio) -4 -3 -2 -1 0 1at 1002.531 kb on + strand, within Xcc-8004.1049.1at 1002.531 kb on + strand, within Xcc-8004.1049.1at 1002.531 kb on + strand, within Xcc-8004.1049.1at 1002.531 kb on + strand, within Xcc-8004.1049.1at 1002.531 kb on + strand, within Xcc-8004.1049.1at 1002.532 kb on - strand, within Xcc-8004.1049.1at 1002.532 kb on - strand, within Xcc-8004.1049.1at 1002.532 kb on - strand, within Xcc-8004.1049.1at 1002.532 kb on - strand, within Xcc-8004.1049.1at 1002.532 kb on - strand, within Xcc-8004.1049.1at 1002.532 kb on - strand, within Xcc-8004.1049.1at 1002.532 kb on - strand, within Xcc-8004.1049.1at 1002.859 kb on + strand, within Xcc-8004.1049.1at 1003.008 kb on + strand, within Xcc-8004.1049.1at 1003.009 kb on - strand, within Xcc-8004.1049.1at 1003.108 kb on + strand, within Xcc-8004.1049.1at 1003.109 kb on - strand, within Xcc-8004.1049.1at 1003.109 kb on - strand, within Xcc-8004.1049.1at 1003.109 kb on - strand, within Xcc-8004.1049.1at 1003.109 kb on - strand, within Xcc-8004.1049.1at 1003.109 kb on - strand, within Xcc-8004.1049.1at 1003.556 kb on - strandat 1003.599 kb on + strand, within Xcc-8004.1050.1at 1003.600 kb on - strand, within Xcc-8004.1050.1at 1003.633 kb on + strand, within Xcc-8004.1050.1at 1003.634 kb on - strand, within Xcc-8004.1050.1at 1003.763 kb on + strand, within Xcc-8004.1050.1at 1003.763 kb on + strand, within Xcc-8004.1050.1at 1003.970 kb on + strand, within Xcc-8004.1050.1at 1003.971 kb on - strand, within Xcc-8004.1050.1at 1004.121 kb on - strand, within Xcc-8004.1050.1at 1004.274 kb on + strandat 1004.274 kb on + strandat 1004.275 kb on - strandat 1004.347 kb on + strandat 1004.347 kb on + strandat 1004.572 kb on - strand, within Xcc-8004.1052.1at 1004.616 kb on + strand, within Xcc-8004.1052.1at 1004.809 kb on + strand, within Xcc-8004.1052.1at 1004.810 kb on - strand, within Xcc-8004.1052.1at 1004.858 kb on + strand, within Xcc-8004.1052.1at 1004.859 kb on - strand, within Xcc-8004.1052.1at 1004.859 kb on - strand, within Xcc-8004.1052.1at 1004.987 kb on - strandat 1005.230 kb on + strand, within Xcc-8004.1053.1at 1005.240 kb on - strand, within Xcc-8004.1053.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Pectin from apple 2 g/L (C)
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1,002,531 + Xcc-8004.1049.1 0.31 -3.3
1,002,531 + Xcc-8004.1049.1 0.31 -1.8
1,002,531 + Xcc-8004.1049.1 0.31 -2.6
1,002,531 + Xcc-8004.1049.1 0.31 -0.6
1,002,531 + Xcc-8004.1049.1 0.31 -2.4
1,002,532 - Xcc-8004.1049.1 0.31 -2.2
1,002,532 - Xcc-8004.1049.1 0.31 -1.1
1,002,532 - Xcc-8004.1049.1 0.31 -1.4
1,002,532 - Xcc-8004.1049.1 0.31 -2.8
1,002,532 - Xcc-8004.1049.1 0.31 -2.4
1,002,532 - Xcc-8004.1049.1 0.31 -3.2
1,002,532 - Xcc-8004.1049.1 0.31 -0.9
1,002,859 + Xcc-8004.1049.1 0.53 -3.2
1,003,008 + Xcc-8004.1049.1 0.63 -1.8
1,003,009 - Xcc-8004.1049.1 0.63 -3.2
1,003,108 + Xcc-8004.1049.1 0.70 -0.5
1,003,109 - Xcc-8004.1049.1 0.70 -0.9
1,003,109 - Xcc-8004.1049.1 0.70 -2.0
1,003,109 - Xcc-8004.1049.1 0.70 -2.8
1,003,109 - Xcc-8004.1049.1 0.70 -0.6
1,003,109 - Xcc-8004.1049.1 0.70 -1.6
1,003,556 - +0.5
1,003,599 + Xcc-8004.1050.1 0.11 +0.6
1,003,600 - Xcc-8004.1050.1 0.11 -4.2
1,003,633 + Xcc-8004.1050.1 0.15 -2.5
1,003,634 - Xcc-8004.1050.1 0.15 -4.1
1,003,763 + Xcc-8004.1050.1 0.32 -1.6
1,003,763 + Xcc-8004.1050.1 0.32 -2.5
1,003,970 + Xcc-8004.1050.1 0.60 -1.7
1,003,971 - Xcc-8004.1050.1 0.60 -2.6
1,004,121 - Xcc-8004.1050.1 0.80 -2.2
1,004,274 + +1.1
1,004,274 + -0.6
1,004,275 - -0.2
1,004,347 + -0.1
1,004,347 + -0.7
1,004,572 - Xcc-8004.1052.1 0.36 +0.3
1,004,616 + Xcc-8004.1052.1 0.42 -2.1
1,004,809 + Xcc-8004.1052.1 0.68 -0.9
1,004,810 - Xcc-8004.1052.1 0.68 -0.1
1,004,858 + Xcc-8004.1052.1 0.74 -2.2
1,004,859 - Xcc-8004.1052.1 0.74 +0.3
1,004,859 - Xcc-8004.1052.1 0.74 +0.8
1,004,987 - -0.1
1,005,230 + Xcc-8004.1053.1 0.18 -0.6
1,005,240 - Xcc-8004.1053.1 0.19 -1.3

Or see this region's nucleotide sequence