Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1454.1

Experiment: Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.2X

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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-8004.1450.1 and Xcc-8004.1453.1 are separated by 128 nucleotidesXcc-8004.1453.1 and Xcc-8004.1454.1 overlap by 19 nucleotidesXcc-8004.1454.1 and Xcc-8004.1455.1 overlap by 74 nucleotidesXcc-8004.1455.1 and Xcc-8004.1456.1 are separated by 137 nucleotidesXcc-8004.1456.1 and Xcc-8004.1457.1 overlap by 56 nucleotidesXcc-8004.1457.1 and Xcc-8004.1458.1 are separated by 54 nucleotides Xcc-8004.1450.1: Xcc-8004.1450.1 - Queuosine Biosynthesis QueC ATPase, at 1,386,949 to 1,387,623 Xcc-8004.1450.1 Xcc-8004.1453.1: Xcc-8004.1453.1 - hypothetical protein, at 1,387,752 to 1,388,084 Xcc-8004.1453.1 Xcc-8004.1454.1: Xcc-8004.1454.1 - hypothetical protein, at 1,388,066 to 1,388,278 Xcc-8004.1454.1 Xcc-8004.1455.1: Xcc-8004.1455.1 - hypothetical protein, at 1,388,205 to 1,388,435 Xcc-8004.1455.1 Xcc-8004.1456.1: Xcc-8004.1456.1 - hypothetical protein, at 1,388,573 to 1,388,878 Xcc-8004.1456.1 Xcc-8004.1457.1: Xcc-8004.1457.1 - putative; ORF located using Glimmer/Genemark, at 1,388,823 to 1,389,161 Xcc-8004.1457.1 Xcc-8004.1458.1: Xcc-8004.1458.1 - Chemotaxis protein methyltransferase CheR (EC 2.1.1.80), at 1,389,216 to 1,390,226 Xcc-8004.1458.1 Position (kb) 1388 1389Strain fitness (log2 ratio) -2 -1 0 1 2at 1387.066 kb on - strand, within Xcc-8004.1450.1at 1387.066 kb on - strand, within Xcc-8004.1450.1at 1387.219 kb on + strand, within Xcc-8004.1450.1at 1387.219 kb on + strand, within Xcc-8004.1450.1at 1387.219 kb on + strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.220 kb on - strand, within Xcc-8004.1450.1at 1387.507 kb on + strand, within Xcc-8004.1450.1at 1387.508 kb on - strand, within Xcc-8004.1450.1at 1387.632 kb on + strandat 1387.632 kb on + strandat 1387.632 kb on + strandat 1387.632 kb on + strandat 1387.794 kb on + strand, within Xcc-8004.1453.1at 1387.795 kb on - strand, within Xcc-8004.1453.1at 1387.795 kb on - strand, within Xcc-8004.1453.1at 1387.868 kb on + strand, within Xcc-8004.1453.1at 1387.868 kb on + strand, within Xcc-8004.1453.1at 1387.963 kb on + strand, within Xcc-8004.1453.1at 1387.963 kb on + strand, within Xcc-8004.1453.1at 1388.100 kb on + strand, within Xcc-8004.1454.1at 1388.100 kb on + strand, within Xcc-8004.1454.1at 1388.100 kb on + strand, within Xcc-8004.1454.1at 1388.101 kb on - strand, within Xcc-8004.1454.1at 1388.101 kb on - strand, within Xcc-8004.1454.1at 1388.101 kb on - strand, within Xcc-8004.1454.1at 1388.101 kb on - strand, within Xcc-8004.1454.1at 1388.101 kb on - strand, within Xcc-8004.1454.1at 1388.206 kb on + strandat 1388.206 kb on + strandat 1388.266 kb on - strandat 1388.266 kb on - strandat 1388.313 kb on - strand, within Xcc-8004.1455.1at 1388.313 kb on - strand, within Xcc-8004.1455.1at 1388.335 kb on + strand, within Xcc-8004.1455.1at 1388.336 kb on - strand, within Xcc-8004.1455.1at 1388.383 kb on + strand, within Xcc-8004.1455.1at 1388.383 kb on + strand, within Xcc-8004.1455.1at 1388.384 kb on - strand, within Xcc-8004.1455.1at 1388.384 kb on - strand, within Xcc-8004.1455.1at 1388.411 kb on + strand, within Xcc-8004.1455.1at 1388.411 kb on + strand, within Xcc-8004.1455.1at 1388.457 kb on - strandat 1388.490 kb on + strandat 1388.490 kb on + strandat 1388.491 kb on - strandat 1388.491 kb on - strandat 1388.491 kb on - strandat 1388.493 kb on + strandat 1388.539 kb on + strandat 1388.540 kb on - strandat 1388.604 kb on + strand, within Xcc-8004.1456.1at 1388.604 kb on + strand, within Xcc-8004.1456.1at 1388.604 kb on + strand, within Xcc-8004.1456.1at 1388.604 kb on + strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.605 kb on - strand, within Xcc-8004.1456.1at 1388.647 kb on - strand, within Xcc-8004.1456.1at 1388.647 kb on - strand, within Xcc-8004.1456.1at 1388.647 kb on - strand, within Xcc-8004.1456.1at 1388.647 kb on - strand, within Xcc-8004.1456.1at 1388.647 kb on - strand, within Xcc-8004.1456.1at 1388.647 kb on - strand, within Xcc-8004.1456.1at 1388.647 kb on - strand, within Xcc-8004.1456.1at 1388.699 kb on + strand, within Xcc-8004.1456.1at 1388.771 kb on + strand, within Xcc-8004.1456.1at 1388.772 kb on - strand, within Xcc-8004.1456.1at 1388.772 kb on - strand, within Xcc-8004.1456.1at 1388.814 kb on - strand, within Xcc-8004.1456.1at 1388.878 kb on + strandat 1388.878 kb on + strandat 1388.878 kb on + strandat 1388.879 kb on - strand, within Xcc-8004.1457.1at 1388.879 kb on - strand, within Xcc-8004.1457.1at 1388.917 kb on + strand, within Xcc-8004.1457.1at 1388.918 kb on - strand, within Xcc-8004.1457.1at 1388.918 kb on - strand, within Xcc-8004.1457.1at 1389.039 kb on - strand, within Xcc-8004.1457.1at 1389.074 kb on + strand, within Xcc-8004.1457.1at 1389.074 kb on + strand, within Xcc-8004.1457.1at 1389.074 kb on + strand, within Xcc-8004.1457.1at 1389.074 kb on + strand, within Xcc-8004.1457.1at 1389.074 kb on + strand, within Xcc-8004.1457.1at 1389.074 kb on + strand, within Xcc-8004.1457.1at 1389.075 kb on - strand, within Xcc-8004.1457.1at 1389.075 kb on - strand, within Xcc-8004.1457.1at 1389.075 kb on - strand, within Xcc-8004.1457.1at 1389.184 kb on + strandat 1389.258 kb on + strandat 1389.259 kb on - strandat 1389.259 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.2X
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1,387,066 - Xcc-8004.1450.1 0.17 -0.6
1,387,066 - Xcc-8004.1450.1 0.17 +1.2
1,387,219 + Xcc-8004.1450.1 0.40 -2.5
1,387,219 + Xcc-8004.1450.1 0.40 +0.9
1,387,219 + Xcc-8004.1450.1 0.40 -1.2
1,387,220 - Xcc-8004.1450.1 0.40 -0.0
1,387,220 - Xcc-8004.1450.1 0.40 -0.8
1,387,220 - Xcc-8004.1450.1 0.40 -0.0
1,387,220 - Xcc-8004.1450.1 0.40 -0.5
1,387,220 - Xcc-8004.1450.1 0.40 +0.2
1,387,220 - Xcc-8004.1450.1 0.40 -0.8
1,387,220 - Xcc-8004.1450.1 0.40 -1.4
1,387,220 - Xcc-8004.1450.1 0.40 -0.1
1,387,507 + Xcc-8004.1450.1 0.83 +1.0
1,387,508 - Xcc-8004.1450.1 0.83 -0.3
1,387,632 + +1.7
1,387,632 + +1.5
1,387,632 + -0.4
1,387,632 + +0.1
1,387,794 + Xcc-8004.1453.1 0.13 -0.3
1,387,795 - Xcc-8004.1453.1 0.13 -0.1
1,387,795 - Xcc-8004.1453.1 0.13 +0.7
1,387,868 + Xcc-8004.1453.1 0.35 -1.0
1,387,868 + Xcc-8004.1453.1 0.35 +0.8
1,387,963 + Xcc-8004.1453.1 0.63 -0.8
1,387,963 + Xcc-8004.1453.1 0.63 -1.4
1,388,100 + Xcc-8004.1454.1 0.16 +0.4
1,388,100 + Xcc-8004.1454.1 0.16 -2.1
1,388,100 + Xcc-8004.1454.1 0.16 -1.6
1,388,101 - Xcc-8004.1454.1 0.16 -0.2
1,388,101 - Xcc-8004.1454.1 0.16 -2.1
1,388,101 - Xcc-8004.1454.1 0.16 -1.2
1,388,101 - Xcc-8004.1454.1 0.16 +0.2
1,388,101 - Xcc-8004.1454.1 0.16 -1.7
1,388,206 + -1.5
1,388,206 + +1.1
1,388,266 - -0.6
1,388,266 - -0.1
1,388,313 - Xcc-8004.1455.1 0.47 +1.4
1,388,313 - Xcc-8004.1455.1 0.47 -1.4
1,388,335 + Xcc-8004.1455.1 0.56 +0.3
1,388,336 - Xcc-8004.1455.1 0.57 +0.9
1,388,383 + Xcc-8004.1455.1 0.77 +0.7
1,388,383 + Xcc-8004.1455.1 0.77 +1.0
1,388,384 - Xcc-8004.1455.1 0.77 -0.7
1,388,384 - Xcc-8004.1455.1 0.77 +0.9
1,388,411 + Xcc-8004.1455.1 0.89 +0.9
1,388,411 + Xcc-8004.1455.1 0.89 +1.3
1,388,457 - +0.5
1,388,490 + -0.7
1,388,490 + +0.2
1,388,491 - -0.2
1,388,491 - +2.7
1,388,491 - -0.7
1,388,493 + +1.0
1,388,539 + -1.0
1,388,540 - +0.9
1,388,604 + Xcc-8004.1456.1 0.10 +0.2
1,388,604 + Xcc-8004.1456.1 0.10 -0.9
1,388,604 + Xcc-8004.1456.1 0.10 -1.1
1,388,604 + Xcc-8004.1456.1 0.10 +1.6
1,388,605 - Xcc-8004.1456.1 0.10 +0.8
1,388,605 - Xcc-8004.1456.1 0.10 +0.2
1,388,605 - Xcc-8004.1456.1 0.10 -0.8
1,388,605 - Xcc-8004.1456.1 0.10 -1.2
1,388,605 - Xcc-8004.1456.1 0.10 +0.7
1,388,605 - Xcc-8004.1456.1 0.10 +0.6
1,388,605 - Xcc-8004.1456.1 0.10 -0.6
1,388,605 - Xcc-8004.1456.1 0.10 +1.1
1,388,647 - Xcc-8004.1456.1 0.24 +1.2
1,388,647 - Xcc-8004.1456.1 0.24 +1.2
1,388,647 - Xcc-8004.1456.1 0.24 -0.4
1,388,647 - Xcc-8004.1456.1 0.24 +0.5
1,388,647 - Xcc-8004.1456.1 0.24 +0.4
1,388,647 - Xcc-8004.1456.1 0.24 +0.4
1,388,647 - Xcc-8004.1456.1 0.24 +0.6
1,388,699 + Xcc-8004.1456.1 0.41 -0.4
1,388,771 + Xcc-8004.1456.1 0.65 +0.2
1,388,772 - Xcc-8004.1456.1 0.65 -2.6
1,388,772 - Xcc-8004.1456.1 0.65 +1.2
1,388,814 - Xcc-8004.1456.1 0.79 +2.6
1,388,878 + +0.5
1,388,878 + +0.6
1,388,878 + +0.3
1,388,879 - Xcc-8004.1457.1 0.17 -1.7
1,388,879 - Xcc-8004.1457.1 0.17 +1.2
1,388,917 + Xcc-8004.1457.1 0.28 -0.4
1,388,918 - Xcc-8004.1457.1 0.28 -0.4
1,388,918 - Xcc-8004.1457.1 0.28 +2.1
1,389,039 - Xcc-8004.1457.1 0.64 +0.6
1,389,074 + Xcc-8004.1457.1 0.74 +0.9
1,389,074 + Xcc-8004.1457.1 0.74 -0.3
1,389,074 + Xcc-8004.1457.1 0.74 -0.6
1,389,074 + Xcc-8004.1457.1 0.74 -2.2
1,389,074 + Xcc-8004.1457.1 0.74 -1.4
1,389,074 + Xcc-8004.1457.1 0.74 +0.7
1,389,075 - Xcc-8004.1457.1 0.74 -0.1
1,389,075 - Xcc-8004.1457.1 0.74 +0.7
1,389,075 - Xcc-8004.1457.1 0.74 -0.4
1,389,184 + +1.4
1,389,258 + -0.9
1,389,259 - -1.5
1,389,259 - +0.8

Or see this region's nucleotide sequence