Strain Fitness in Agrobacterium fabrum C58 around Atu5042

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI

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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 ntAtu5040 and Atu5041 overlap by 4 nucleotidesAtu5041 and Atu5042 overlap by 4 nucleotidesAtu5042 and Atu5043 are separated by 100 nucleotidesAtu5043 and Atu5044 are separated by 48 nucleotides Atu5040: Atu5040 - hypothetical protein, at 40,495 to 41,397 Atu5040 Atu5041: Atu5041 - plasmid partitioning protein, at 41,394 to 42,281 Atu5041 Atu5042: Atu5042 - recombinase, at 42,278 to 43,795 Atu5042 Atu5043: Atu5043 - hypothetical protein, at 43,896 to 44,303 Atu5043 Atu5044: Atu5044 - hypothetical protein, at 44,352 to 45,479 Atu5044 Position (kb) 42 43 44Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 41.299 kb on + strand, within Atu5040at 41.307 kb on - strandat 41.350 kb on - strandat 41.365 kb on - strandat 41.430 kb on + strandat 41.444 kb on + strandat 41.445 kb on + strandat 41.458 kb on + strandat 41.547 kb on - strand, within Atu5041at 41.548 kb on - strand, within Atu5041at 41.554 kb on + strand, within Atu5041at 41.579 kb on + strand, within Atu5041at 41.579 kb on + strand, within Atu5041at 41.579 kb on + strand, within Atu5041at 41.587 kb on - strand, within Atu5041at 41.635 kb on + strand, within Atu5041at 41.637 kb on + strand, within Atu5041at 41.637 kb on + strand, within Atu5041at 41.643 kb on - strand, within Atu5041at 41.645 kb on - strand, within Atu5041at 41.645 kb on - strand, within Atu5041at 41.747 kb on - strand, within Atu5041at 41.748 kb on - strand, within Atu5041at 41.770 kb on - strand, within Atu5041at 41.784 kb on + strand, within Atu5041at 41.838 kb on - strand, within Atu5041at 41.860 kb on - strand, within Atu5041at 41.872 kb on + strand, within Atu5041at 41.877 kb on + strand, within Atu5041at 41.885 kb on - strand, within Atu5041at 41.971 kb on + strand, within Atu5041at 41.972 kb on - strand, within Atu5041at 42.039 kb on + strand, within Atu5041at 42.083 kb on + strand, within Atu5041at 42.083 kb on + strand, within Atu5041at 42.101 kb on - strand, within Atu5041at 42.119 kb on - strand, within Atu5041at 42.154 kb on - strand, within Atu5041at 42.161 kb on + strand, within Atu5041at 42.223 kb on - strandat 42.331 kb on + strandat 42.339 kb on - strandat 42.339 kb on - strandat 42.363 kb on + strandat 42.363 kb on + strandat 42.371 kb on - strandat 42.378 kb on + strandat 42.451 kb on - strand, within Atu5042at 42.463 kb on - strand, within Atu5042at 42.471 kb on - strand, within Atu5042at 42.472 kb on + strand, within Atu5042at 42.480 kb on - strand, within Atu5042at 42.523 kb on + strand, within Atu5042at 42.528 kb on + strand, within Atu5042at 42.617 kb on - strand, within Atu5042at 42.668 kb on - strand, within Atu5042at 42.674 kb on - strand, within Atu5042at 42.691 kb on - strand, within Atu5042at 42.701 kb on - strand, within Atu5042at 42.714 kb on + strand, within Atu5042at 42.715 kb on + strand, within Atu5042at 42.821 kb on - strand, within Atu5042at 42.853 kb on - strand, within Atu5042at 42.860 kb on + strand, within Atu5042at 42.879 kb on + strand, within Atu5042at 42.920 kb on - strand, within Atu5042at 42.937 kb on - strand, within Atu5042at 43.016 kb on - strand, within Atu5042at 43.019 kb on + strand, within Atu5042at 43.019 kb on + strand, within Atu5042at 43.025 kb on - strand, within Atu5042at 43.069 kb on - strand, within Atu5042at 43.233 kb on + strand, within Atu5042at 43.309 kb on + strand, within Atu5042at 43.317 kb on - strand, within Atu5042at 43.317 kb on - strand, within Atu5042at 43.329 kb on + strand, within Atu5042at 43.366 kb on - strand, within Atu5042at 43.473 kb on + strand, within Atu5042at 43.473 kb on + strand, within Atu5042at 43.494 kb on - strand, within Atu5042at 43.508 kb on + strand, within Atu5042at 43.508 kb on + strand, within Atu5042at 43.508 kb on - strand, within Atu5042at 43.602 kb on + strand, within Atu5042at 43.709 kb on + strandat 43.856 kb on - strandat 43.975 kb on - strand, within Atu5043at 44.030 kb on + strand, within Atu5043at 44.068 kb on + strand, within Atu5043at 44.122 kb on - strand, within Atu5043at 44.160 kb on + strand, within Atu5043at 44.186 kb on - strand, within Atu5043at 44.266 kb on + strandat 44.274 kb on - strandat 44.322 kb on - strandat 44.330 kb on - strandat 44.368 kb on + strandat 44.387 kb on - strandat 44.435 kb on - strandat 44.435 kb on - strandat 44.445 kb on - strandat 44.588 kb on + strand, within Atu5044at 44.611 kb on + strand, within Atu5044at 44.623 kb on - strand, within Atu5044at 44.624 kb on - strand, within Atu5044at 44.656 kb on + strand, within Atu5044at 44.702 kb on + strand, within Atu5044at 44.711 kb on - strand, within Atu5044at 44.722 kb on + strand, within Atu5044at 44.722 kb on + strand, within Atu5044at 44.730 kb on - strand, within Atu5044at 44.754 kb on + strand, within Atu5044

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI
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41,299 + Atu5040 0.89 -0.2
41,307 - +0.0
41,350 - +0.3
41,365 - -1.5
41,430 + +1.0
41,444 + -0.4
41,445 + +0.4
41,458 + -0.9
41,547 - Atu5041 0.17 -1.3
41,548 - Atu5041 0.17 +0.4
41,554 + Atu5041 0.18 +0.7
41,579 + Atu5041 0.21 -0.6
41,579 + Atu5041 0.21 +0.3
41,579 + Atu5041 0.21 +0.1
41,587 - Atu5041 0.22 +0.3
41,635 + Atu5041 0.27 -0.3
41,637 + Atu5041 0.27 -0.3
41,637 + Atu5041 0.27 +0.7
41,643 - Atu5041 0.28 -0.4
41,645 - Atu5041 0.28 -0.6
41,645 - Atu5041 0.28 +0.1
41,747 - Atu5041 0.40 -0.3
41,748 - Atu5041 0.40 -1.1
41,770 - Atu5041 0.42 -2.3
41,784 + Atu5041 0.44 -1.9
41,838 - Atu5041 0.50 +2.3
41,860 - Atu5041 0.52 -2.7
41,872 + Atu5041 0.54 -0.9
41,877 + Atu5041 0.54 +0.5
41,885 - Atu5041 0.55 -1.3
41,971 + Atu5041 0.65 -0.8
41,972 - Atu5041 0.65 +1.0
42,039 + Atu5041 0.73 +2.4
42,083 + Atu5041 0.78 -1.9
42,083 + Atu5041 0.78 -0.8
42,101 - Atu5041 0.80 +0.6
42,119 - Atu5041 0.82 -0.7
42,154 - Atu5041 0.86 -1.3
42,161 + Atu5041 0.86 -0.2
42,223 - +0.1
42,331 + -0.5
42,339 - +1.4
42,339 - -0.7
42,363 + -3.0
42,363 + -0.6
42,371 - +0.1
42,378 + -3.7
42,451 - Atu5042 0.11 -0.7
42,463 - Atu5042 0.12 -1.1
42,471 - Atu5042 0.13 +0.1
42,472 + Atu5042 0.13 -2.4
42,480 - Atu5042 0.13 -0.7
42,523 + Atu5042 0.16 -3.3
42,528 + Atu5042 0.16 -1.1
42,617 - Atu5042 0.22 -0.5
42,668 - Atu5042 0.26 -1.0
42,674 - Atu5042 0.26 -0.1
42,691 - Atu5042 0.27 +0.9
42,701 - Atu5042 0.28 -0.3
42,714 + Atu5042 0.29 -0.9
42,715 + Atu5042 0.29 +0.7
42,821 - Atu5042 0.36 -0.1
42,853 - Atu5042 0.38 +0.0
42,860 + Atu5042 0.38 -1.5
42,879 + Atu5042 0.40 -1.3
42,920 - Atu5042 0.42 -0.6
42,937 - Atu5042 0.43 -1.3
43,016 - Atu5042 0.49 -0.3
43,019 + Atu5042 0.49 +0.0
43,019 + Atu5042 0.49 -0.6
43,025 - Atu5042 0.49 -1.1
43,069 - Atu5042 0.52 -0.9
43,233 + Atu5042 0.63 -1.3
43,309 + Atu5042 0.68 -1.8
43,317 - Atu5042 0.68 -2.6
43,317 - Atu5042 0.68 +0.1
43,329 + Atu5042 0.69 +1.5
43,366 - Atu5042 0.72 +0.7
43,473 + Atu5042 0.79 -1.9
43,473 + Atu5042 0.79 -0.7
43,494 - Atu5042 0.80 +1.4
43,508 + Atu5042 0.81 +0.1
43,508 + Atu5042 0.81 +0.2
43,508 - Atu5042 0.81 -1.9
43,602 + Atu5042 0.87 -0.5
43,709 + -0.6
43,856 - -1.0
43,975 - Atu5043 0.19 +0.6
44,030 + Atu5043 0.33 +0.2
44,068 + Atu5043 0.42 -0.7
44,122 - Atu5043 0.55 +0.9
44,160 + Atu5043 0.65 +0.7
44,186 - Atu5043 0.71 -0.6
44,266 + -0.1
44,274 - -0.5
44,322 - +0.6
44,330 - -0.2
44,368 + -1.0
44,387 - -1.3
44,435 - -0.7
44,435 - -0.2
44,445 - -1.3
44,588 + Atu5044 0.21 -1.9
44,611 + Atu5044 0.23 -0.0
44,623 - Atu5044 0.24 +0.3
44,624 - Atu5044 0.24 +1.0
44,656 + Atu5044 0.27 -0.8
44,702 + Atu5044 0.31 +0.8
44,711 - Atu5044 0.32 +0.3
44,722 + Atu5044 0.33 -0.6
44,722 + Atu5044 0.33 +0.3
44,730 - Atu5044 0.34 -0.1
44,754 + Atu5044 0.36 -3.9

Or see this region's nucleotide sequence