Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1290.1

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-8004.1289.1 and Xcc-8004.1290.1 are separated by 184 nucleotidesXcc-8004.1290.1 and Xcc-8004.1292.1 are separated by 32 nucleotides Xcc-8004.1289.1: Xcc-8004.1289.1 - Integrase, at 1,231,179 to 1,233,059 Xcc-8004.1289.1 Xcc-8004.1290.1: Xcc-8004.1290.1 - hypothetical protein, at 1,233,244 to 1,233,663 Xcc-8004.1290.1 Xcc-8004.1292.1: Xcc-8004.1292.1 - putative; ORF located using Glimmer/Genemark, at 1,233,696 to 1,234,697 Xcc-8004.1292.1 Position (kb) 1233 1234Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3 4at 1232.331 kb on + strand, within Xcc-8004.1289.1at 1232.331 kb on + strand, within Xcc-8004.1289.1at 1232.331 kb on + strand, within Xcc-8004.1289.1at 1232.331 kb on + strand, within Xcc-8004.1289.1at 1232.332 kb on - strand, within Xcc-8004.1289.1at 1232.332 kb on - strand, within Xcc-8004.1289.1at 1232.332 kb on - strand, within Xcc-8004.1289.1at 1232.332 kb on - strand, within Xcc-8004.1289.1at 1232.366 kb on - strand, within Xcc-8004.1289.1at 1232.527 kb on + strand, within Xcc-8004.1289.1at 1232.527 kb on + strand, within Xcc-8004.1289.1at 1232.527 kb on + strand, within Xcc-8004.1289.1at 1232.528 kb on - strand, within Xcc-8004.1289.1at 1232.528 kb on - strand, within Xcc-8004.1289.1at 1232.528 kb on - strand, within Xcc-8004.1289.1at 1232.647 kb on + strand, within Xcc-8004.1289.1at 1232.647 kb on + strand, within Xcc-8004.1289.1at 1232.691 kb on + strand, within Xcc-8004.1289.1at 1232.726 kb on + strand, within Xcc-8004.1289.1at 1232.727 kb on - strand, within Xcc-8004.1289.1at 1232.730 kb on + strand, within Xcc-8004.1289.1at 1232.731 kb on - strand, within Xcc-8004.1289.1at 1232.731 kb on - strand, within Xcc-8004.1289.1at 1232.753 kb on - strand, within Xcc-8004.1289.1at 1232.753 kb on - strand, within Xcc-8004.1289.1at 1232.753 kb on - strand, within Xcc-8004.1289.1at 1232.865 kb on - strand, within Xcc-8004.1289.1at 1232.865 kb on - strand, within Xcc-8004.1289.1at 1232.865 kb on - strand, within Xcc-8004.1289.1at 1232.873 kb on + strandat 1232.873 kb on + strandat 1232.877 kb on + strandat 1232.877 kb on + strandat 1232.878 kb on - strandat 1232.878 kb on - strandat 1232.878 kb on - strandat 1232.878 kb on - strandat 1232.878 kb on - strandat 1232.880 kb on + strandat 1232.881 kb on - strandat 1232.925 kb on - strandat 1232.984 kb on - strandat 1232.984 kb on - strandat 1233.026 kb on - strandat 1233.109 kb on + strandat 1233.109 kb on + strandat 1233.109 kb on + strandat 1233.110 kb on - strandat 1233.110 kb on - strandat 1233.142 kb on + strandat 1233.161 kb on + strandat 1233.174 kb on - strandat 1233.174 kb on - strandat 1233.174 kb on - strandat 1233.270 kb on + strandat 1233.270 kb on + strandat 1233.270 kb on + strandat 1233.271 kb on - strandat 1233.276 kb on + strandat 1233.276 kb on + strandat 1233.276 kb on + strandat 1233.277 kb on - strandat 1233.277 kb on - strandat 1233.277 kb on - strandat 1233.318 kb on - strand, within Xcc-8004.1290.1at 1233.360 kb on - strand, within Xcc-8004.1290.1at 1233.457 kb on - strand, within Xcc-8004.1290.1at 1233.549 kb on + strand, within Xcc-8004.1290.1at 1233.549 kb on + strand, within Xcc-8004.1290.1at 1233.562 kb on - strand, within Xcc-8004.1290.1at 1233.563 kb on + strand, within Xcc-8004.1290.1at 1233.563 kb on + strand, within Xcc-8004.1290.1at 1233.563 kb on + strand, within Xcc-8004.1290.1at 1233.563 kb on + strand, within Xcc-8004.1290.1at 1233.563 kb on + strand, within Xcc-8004.1290.1at 1233.563 kb on + strand, within Xcc-8004.1290.1at 1233.586 kb on + strand, within Xcc-8004.1290.1at 1233.599 kb on + strand, within Xcc-8004.1290.1at 1233.599 kb on + strand, within Xcc-8004.1290.1at 1233.638 kb on + strandat 1233.654 kb on + strandat 1233.655 kb on - strandat 1233.661 kb on + strandat 1233.706 kb on - strandat 1233.708 kb on - strandat 1233.708 kb on - strandat 1233.708 kb on - strandat 1233.742 kb on + strandat 1233.790 kb on + strandat 1233.791 kb on - strandat 1233.791 kb on - strandat 1233.800 kb on - strand, within Xcc-8004.1292.1at 1233.800 kb on - strand, within Xcc-8004.1292.1at 1233.800 kb on - strand, within Xcc-8004.1292.1at 1233.844 kb on + strand, within Xcc-8004.1292.1at 1233.845 kb on - strand, within Xcc-8004.1292.1at 1233.848 kb on + strand, within Xcc-8004.1292.1at 1233.848 kb on + strand, within Xcc-8004.1292.1at 1233.860 kb on + strand, within Xcc-8004.1292.1at 1233.904 kb on - strand, within Xcc-8004.1292.1at 1233.939 kb on - strand, within Xcc-8004.1292.1at 1234.059 kb on + strand, within Xcc-8004.1292.1at 1234.060 kb on - strand, within Xcc-8004.1292.1at 1234.098 kb on - strand, within Xcc-8004.1292.1at 1234.098 kb on - strand, within Xcc-8004.1292.1at 1234.101 kb on - strand, within Xcc-8004.1292.1at 1234.190 kb on + strand, within Xcc-8004.1292.1at 1234.190 kb on + strand, within Xcc-8004.1292.1at 1234.191 kb on - strand, within Xcc-8004.1292.1at 1234.191 kb on - strand, within Xcc-8004.1292.1at 1234.191 kb on - strand, within Xcc-8004.1292.1at 1234.191 kb on - strand, within Xcc-8004.1292.1at 1234.208 kb on + strand, within Xcc-8004.1292.1at 1234.208 kb on + strand, within Xcc-8004.1292.1at 1234.209 kb on - strand, within Xcc-8004.1292.1at 1234.209 kb on - strand, within Xcc-8004.1292.1at 1234.209 kb on - strand, within Xcc-8004.1292.1at 1234.209 kb on - strand, within Xcc-8004.1292.1at 1234.210 kb on + strand, within Xcc-8004.1292.1at 1234.255 kb on + strand, within Xcc-8004.1292.1at 1234.427 kb on + strand, within Xcc-8004.1292.1at 1234.428 kb on - strand, within Xcc-8004.1292.1at 1234.428 kb on - strand, within Xcc-8004.1292.1at 1234.533 kb on + strand, within Xcc-8004.1292.1at 1234.533 kb on + strand, within Xcc-8004.1292.1at 1234.533 kb on + strand, within Xcc-8004.1292.1at 1234.534 kb on - strand, within Xcc-8004.1292.1at 1234.534 kb on - strand, within Xcc-8004.1292.1at 1234.534 kb on - strand, within Xcc-8004.1292.1at 1234.534 kb on - strand, within Xcc-8004.1292.1at 1234.555 kb on + strand, within Xcc-8004.1292.1

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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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1,232,331 + Xcc-8004.1289.1 0.61 -1.4
1,232,331 + Xcc-8004.1289.1 0.61 -2.0
1,232,331 + Xcc-8004.1289.1 0.61 -1.7
1,232,331 + Xcc-8004.1289.1 0.61 -1.5
1,232,332 - Xcc-8004.1289.1 0.61 +1.4
1,232,332 - Xcc-8004.1289.1 0.61 +0.1
1,232,332 - Xcc-8004.1289.1 0.61 -0.7
1,232,332 - Xcc-8004.1289.1 0.61 +0.8
1,232,366 - Xcc-8004.1289.1 0.63 +0.2
1,232,527 + Xcc-8004.1289.1 0.72 +0.3
1,232,527 + Xcc-8004.1289.1 0.72 +0.3
1,232,527 + Xcc-8004.1289.1 0.72 -0.4
1,232,528 - Xcc-8004.1289.1 0.72 +0.2
1,232,528 - Xcc-8004.1289.1 0.72 -3.1
1,232,528 - Xcc-8004.1289.1 0.72 +0.6
1,232,647 + Xcc-8004.1289.1 0.78 -1.5
1,232,647 + Xcc-8004.1289.1 0.78 -1.5
1,232,691 + Xcc-8004.1289.1 0.80 +0.6
1,232,726 + Xcc-8004.1289.1 0.82 -3.0
1,232,727 - Xcc-8004.1289.1 0.82 -0.2
1,232,730 + Xcc-8004.1289.1 0.82 -0.1
1,232,731 - Xcc-8004.1289.1 0.83 +0.6
1,232,731 - Xcc-8004.1289.1 0.83 -1.3
1,232,753 - Xcc-8004.1289.1 0.84 -0.8
1,232,753 - Xcc-8004.1289.1 0.84 -0.0
1,232,753 - Xcc-8004.1289.1 0.84 +0.3
1,232,865 - Xcc-8004.1289.1 0.90 +0.6
1,232,865 - Xcc-8004.1289.1 0.90 +1.7
1,232,865 - Xcc-8004.1289.1 0.90 +0.9
1,232,873 + -1.1
1,232,873 + -2.3
1,232,877 + +1.9
1,232,877 + -0.1
1,232,878 - -0.4
1,232,878 - -0.6
1,232,878 - -0.6
1,232,878 - -1.8
1,232,878 - +0.6
1,232,880 + -1.4
1,232,881 - +0.0
1,232,925 - -1.6
1,232,984 - +0.3
1,232,984 - -2.8
1,233,026 - -1.4
1,233,109 + -1.3
1,233,109 + -3.2
1,233,109 + -1.9
1,233,110 - -0.2
1,233,110 - -0.1
1,233,142 + -0.4
1,233,161 + +0.4
1,233,174 - +1.6
1,233,174 - +0.1
1,233,174 - -1.4
1,233,270 + -2.3
1,233,270 + +0.6
1,233,270 + +1.3
1,233,271 - +1.5
1,233,276 + -1.1
1,233,276 + -2.9
1,233,276 + +1.5
1,233,277 - -1.6
1,233,277 - +1.0
1,233,277 - -1.7
1,233,318 - Xcc-8004.1290.1 0.18 +2.2
1,233,360 - Xcc-8004.1290.1 0.28 -2.7
1,233,457 - Xcc-8004.1290.1 0.51 +3.8
1,233,549 + Xcc-8004.1290.1 0.73 +0.6
1,233,549 + Xcc-8004.1290.1 0.73 +0.8
1,233,562 - Xcc-8004.1290.1 0.76 +1.5
1,233,563 + Xcc-8004.1290.1 0.76 +2.6
1,233,563 + Xcc-8004.1290.1 0.76 +1.3
1,233,563 + Xcc-8004.1290.1 0.76 +0.4
1,233,563 + Xcc-8004.1290.1 0.76 -3.0
1,233,563 + Xcc-8004.1290.1 0.76 -1.7
1,233,563 + Xcc-8004.1290.1 0.76 +1.9
1,233,586 + Xcc-8004.1290.1 0.81 +0.8
1,233,599 + Xcc-8004.1290.1 0.85 +0.6
1,233,599 + Xcc-8004.1290.1 0.85 -0.4
1,233,638 + -0.2
1,233,654 + +1.0
1,233,655 - -1.3
1,233,661 + -1.0
1,233,706 - +1.1
1,233,708 - -0.4
1,233,708 - -0.6
1,233,708 - +1.8
1,233,742 + +1.0
1,233,790 + +0.3
1,233,791 - -0.6
1,233,791 - -2.2
1,233,800 - Xcc-8004.1292.1 0.10 -0.9
1,233,800 - Xcc-8004.1292.1 0.10 +1.0
1,233,800 - Xcc-8004.1292.1 0.10 +3.4
1,233,844 + Xcc-8004.1292.1 0.15 +1.1
1,233,845 - Xcc-8004.1292.1 0.15 -0.8
1,233,848 + Xcc-8004.1292.1 0.15 +0.1
1,233,848 + Xcc-8004.1292.1 0.15 -0.1
1,233,860 + Xcc-8004.1292.1 0.16 -1.4
1,233,904 - Xcc-8004.1292.1 0.21 -0.2
1,233,939 - Xcc-8004.1292.1 0.24 +1.7
1,234,059 + Xcc-8004.1292.1 0.36 +1.3
1,234,060 - Xcc-8004.1292.1 0.36 +0.5
1,234,098 - Xcc-8004.1292.1 0.40 -0.4
1,234,098 - Xcc-8004.1292.1 0.40 +1.6
1,234,101 - Xcc-8004.1292.1 0.40 -0.7
1,234,190 + Xcc-8004.1292.1 0.49 -1.5
1,234,190 + Xcc-8004.1292.1 0.49 -1.4
1,234,191 - Xcc-8004.1292.1 0.49 +2.3
1,234,191 - Xcc-8004.1292.1 0.49 -1.6
1,234,191 - Xcc-8004.1292.1 0.49 -1.9
1,234,191 - Xcc-8004.1292.1 0.49 +1.2
1,234,208 + Xcc-8004.1292.1 0.51 -1.2
1,234,208 + Xcc-8004.1292.1 0.51 +0.2
1,234,209 - Xcc-8004.1292.1 0.51 +0.6
1,234,209 - Xcc-8004.1292.1 0.51 +0.1
1,234,209 - Xcc-8004.1292.1 0.51 -0.7
1,234,209 - Xcc-8004.1292.1 0.51 +1.3
1,234,210 + Xcc-8004.1292.1 0.51 +0.6
1,234,255 + Xcc-8004.1292.1 0.56 -0.7
1,234,427 + Xcc-8004.1292.1 0.73 +1.0
1,234,428 - Xcc-8004.1292.1 0.73 +0.8
1,234,428 - Xcc-8004.1292.1 0.73 -3.1
1,234,533 + Xcc-8004.1292.1 0.84 -2.1
1,234,533 + Xcc-8004.1292.1 0.84 +0.8
1,234,533 + Xcc-8004.1292.1 0.84 -1.8
1,234,534 - Xcc-8004.1292.1 0.84 -2.4
1,234,534 - Xcc-8004.1292.1 0.84 -0.9
1,234,534 - Xcc-8004.1292.1 0.84 -0.2
1,234,534 - Xcc-8004.1292.1 0.84 +1.8
1,234,555 + Xcc-8004.1292.1 0.86 -0.5

Or see this region's nucleotide sequence