Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1228.1

Experiment: MOKA

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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-8004.1225.1 and Xcc-8004.1226.1 overlap by 4 nucleotidesXcc-8004.1226.1 and Xcc-8004.1228.1 are separated by 197 nucleotidesXcc-8004.1228.1 and Xcc-8004.1229.1 are separated by 237 nucleotidesXcc-8004.1229.1 and Xcc-8004.1230.1 are separated by 61 nucleotidesXcc-8004.1230.1 and Xcc-8004.1231.1 overlap by 53 nucleotides Xcc-8004.1225.1: Xcc-8004.1225.1 - Thymidine phosphorylase (EC 2.4.2.4), at 1,156,480 to 1,158,918 Xcc-8004.1225.1 Xcc-8004.1226.1: Xcc-8004.1226.1 - FIG01210021: hypothetical protein, at 1,158,915 to 1,159,259 Xcc-8004.1226.1 Xcc-8004.1228.1: Xcc-8004.1228.1 - Xaa-Pro dipeptidase PepQ (EC 3.4.13.9), at 1,159,457 to 1,160,782 Xcc-8004.1228.1 Xcc-8004.1229.1: Xcc-8004.1229.1 - hypothetical protein, at 1,161,020 to 1,161,313 Xcc-8004.1229.1 Xcc-8004.1230.1: Xcc-8004.1230.1 - Mobile element protein, at 1,161,375 to 1,161,761 Xcc-8004.1230.1 Xcc-8004.1231.1: Xcc-8004.1231.1 - Mobile element protein, at 1,161,709 to 1,162,179 Xcc-8004.1231.1 Position (kb) 1159 1160 1161Strain fitness (log2 ratio) -2 -1 0 1 2at 1158.607 kb on + strand, within Xcc-8004.1225.1at 1158.608 kb on - strand, within Xcc-8004.1225.1at 1158.608 kb on - strand, within Xcc-8004.1225.1at 1158.608 kb on - strand, within Xcc-8004.1225.1at 1158.697 kb on + strandat 1158.698 kb on - strandat 1159.071 kb on + strand, within Xcc-8004.1226.1at 1159.071 kb on + strand, within Xcc-8004.1226.1at 1159.072 kb on - strand, within Xcc-8004.1226.1at 1159.257 kb on + strandat 1159.257 kb on + strandat 1159.257 kb on + strandat 1159.456 kb on + strandat 1159.456 kb on + strandat 1159.457 kb on - strandat 1159.457 kb on - strandat 1159.484 kb on + strandat 1159.484 kb on + strandat 1159.485 kb on - strandat 1159.581 kb on - strandat 1159.581 kb on - strandat 1159.677 kb on - strand, within Xcc-8004.1228.1at 1159.677 kb on - strand, within Xcc-8004.1228.1at 1159.725 kb on - strand, within Xcc-8004.1228.1at 1159.919 kb on + strand, within Xcc-8004.1228.1at 1159.919 kb on + strand, within Xcc-8004.1228.1at 1159.920 kb on - strand, within Xcc-8004.1228.1at 1159.920 kb on - strand, within Xcc-8004.1228.1at 1159.943 kb on + strand, within Xcc-8004.1228.1at 1159.943 kb on + strand, within Xcc-8004.1228.1at 1160.051 kb on + strand, within Xcc-8004.1228.1at 1160.051 kb on + strand, within Xcc-8004.1228.1at 1160.051 kb on + strand, within Xcc-8004.1228.1at 1160.136 kb on - strand, within Xcc-8004.1228.1at 1160.136 kb on - strand, within Xcc-8004.1228.1at 1160.210 kb on + strand, within Xcc-8004.1228.1at 1160.234 kb on + strand, within Xcc-8004.1228.1at 1160.235 kb on - strand, within Xcc-8004.1228.1at 1160.235 kb on - strand, within Xcc-8004.1228.1at 1160.235 kb on - strand, within Xcc-8004.1228.1at 1160.235 kb on - strand, within Xcc-8004.1228.1at 1160.331 kb on - strand, within Xcc-8004.1228.1at 1160.331 kb on - strand, within Xcc-8004.1228.1at 1160.331 kb on - strand, within Xcc-8004.1228.1at 1160.331 kb on - strand, within Xcc-8004.1228.1at 1160.331 kb on - strand, within Xcc-8004.1228.1at 1160.396 kb on - strand, within Xcc-8004.1228.1at 1160.549 kb on + strand, within Xcc-8004.1228.1at 1160.549 kb on + strand, within Xcc-8004.1228.1at 1160.550 kb on - strand, within Xcc-8004.1228.1at 1160.609 kb on + strand, within Xcc-8004.1228.1at 1160.609 kb on + strand, within Xcc-8004.1228.1at 1160.610 kb on - strand, within Xcc-8004.1228.1at 1160.820 kb on + strandat 1160.839 kb on - strandat 1160.839 kb on - strandat 1160.839 kb on - strandat 1160.904 kb on - strandat 1160.904 kb on - strandat 1161.030 kb on + strandat 1161.067 kb on + strand, within Xcc-8004.1229.1at 1161.067 kb on + strand, within Xcc-8004.1229.1at 1161.067 kb on + strand, within Xcc-8004.1229.1at 1161.097 kb on - strand, within Xcc-8004.1229.1at 1161.097 kb on - strand, within Xcc-8004.1229.1at 1161.244 kb on - strand, within Xcc-8004.1229.1at 1161.326 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction MOKA
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1,158,607 + Xcc-8004.1225.1 0.87 -1.0
1,158,608 - Xcc-8004.1225.1 0.87 -0.3
1,158,608 - Xcc-8004.1225.1 0.87 -0.1
1,158,608 - Xcc-8004.1225.1 0.87 -0.0
1,158,697 + +0.1
1,158,698 - -0.2
1,159,071 + Xcc-8004.1226.1 0.45 -1.1
1,159,071 + Xcc-8004.1226.1 0.45 -0.3
1,159,072 - Xcc-8004.1226.1 0.46 -1.7
1,159,257 + -0.1
1,159,257 + -0.3
1,159,257 + -0.2
1,159,456 + +2.2
1,159,456 + -2.1
1,159,457 - -1.4
1,159,457 - -0.2
1,159,484 + -0.6
1,159,484 + -0.7
1,159,485 - +0.8
1,159,581 - -1.3
1,159,581 - -0.8
1,159,677 - Xcc-8004.1228.1 0.17 -0.4
1,159,677 - Xcc-8004.1228.1 0.17 +0.9
1,159,725 - Xcc-8004.1228.1 0.20 +1.0
1,159,919 + Xcc-8004.1228.1 0.35 -1.7
1,159,919 + Xcc-8004.1228.1 0.35 -0.9
1,159,920 - Xcc-8004.1228.1 0.35 -2.0
1,159,920 - Xcc-8004.1228.1 0.35 -1.4
1,159,943 + Xcc-8004.1228.1 0.37 +0.0
1,159,943 + Xcc-8004.1228.1 0.37 -1.0
1,160,051 + Xcc-8004.1228.1 0.45 +0.6
1,160,051 + Xcc-8004.1228.1 0.45 +0.6
1,160,051 + Xcc-8004.1228.1 0.45 -1.4
1,160,136 - Xcc-8004.1228.1 0.51 -0.5
1,160,136 - Xcc-8004.1228.1 0.51 -1.6
1,160,210 + Xcc-8004.1228.1 0.57 +0.8
1,160,234 + Xcc-8004.1228.1 0.59 -1.1
1,160,235 - Xcc-8004.1228.1 0.59 -0.0
1,160,235 - Xcc-8004.1228.1 0.59 -0.6
1,160,235 - Xcc-8004.1228.1 0.59 -0.8
1,160,235 - Xcc-8004.1228.1 0.59 -2.3
1,160,331 - Xcc-8004.1228.1 0.66 +0.3
1,160,331 - Xcc-8004.1228.1 0.66 +0.3
1,160,331 - Xcc-8004.1228.1 0.66 -1.6
1,160,331 - Xcc-8004.1228.1 0.66 -0.4
1,160,331 - Xcc-8004.1228.1 0.66 -1.0
1,160,396 - Xcc-8004.1228.1 0.71 -0.1
1,160,549 + Xcc-8004.1228.1 0.82 -1.2
1,160,549 + Xcc-8004.1228.1 0.82 -0.5
1,160,550 - Xcc-8004.1228.1 0.82 -0.3
1,160,609 + Xcc-8004.1228.1 0.87 -0.4
1,160,609 + Xcc-8004.1228.1 0.87 -1.5
1,160,610 - Xcc-8004.1228.1 0.87 -0.7
1,160,820 + -0.1
1,160,839 - -0.7
1,160,839 - -0.5
1,160,839 - -1.0
1,160,904 - -0.1
1,160,904 - +0.5
1,161,030 + -0.4
1,161,067 + Xcc-8004.1229.1 0.16 -0.5
1,161,067 + Xcc-8004.1229.1 0.16 +0.5
1,161,067 + Xcc-8004.1229.1 0.16 -0.7
1,161,097 - Xcc-8004.1229.1 0.26 -1.2
1,161,097 - Xcc-8004.1229.1 0.26 +1.6
1,161,244 - Xcc-8004.1229.1 0.76 -0.2
1,161,326 - -0.2

Or see this region's nucleotide sequence