Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1955.1

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-8004.1953.1 and Xcc-8004.1954.1 overlap by 11 nucleotidesXcc-8004.1954.1 and Xcc-8004.1955.1 overlap by 11 nucleotidesXcc-8004.1955.1 and Xcc-8004.1956.1 overlap by 8 nucleotides Xcc-8004.1953.1: Xcc-8004.1953.1 - Protein-N(5)-glutamine methyltransferase PrmB, methylates LSU ribosomal protein L3p, at 1,883,386 to 1,884,312 Xcc-8004.1953.1 Xcc-8004.1954.1: Xcc-8004.1954.1 - putative; ORF located using Glimmer/Genemark, at 1,884,302 to 1,884,790 Xcc-8004.1954.1 Xcc-8004.1955.1: Xcc-8004.1955.1 - Chorismate synthase (EC 4.2.3.5), at 1,884,780 to 1,885,883 Xcc-8004.1955.1 Xcc-8004.1956.1: Xcc-8004.1956.1 - Glyoxylate reductase (EC 1.1.1.79) / Glyoxylate reductase (EC 1.1.1.26) / Hydroxypyruvate reductase (EC 1.1.1.81); 2-ketoaldonate reductase, broad specificity (EC 1.1.1.215) (EC 1.1.1.-), at 1,885,876 to 1,886,934 Xcc-8004.1956.1 Position (kb) 1884 1885 1886Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1883.833 kb on + strand, within Xcc-8004.1953.1at 1883.833 kb on + strand, within Xcc-8004.1953.1at 1883.833 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1883.974 kb on + strand, within Xcc-8004.1953.1at 1884.001 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.040 kb on + strand, within Xcc-8004.1953.1at 1884.046 kb on + strand, within Xcc-8004.1953.1at 1884.431 kb on + strand, within Xcc-8004.1954.1at 1884.431 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.549 kb on + strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.550 kb on - strand, within Xcc-8004.1954.1at 1884.944 kb on + strand, within Xcc-8004.1955.1at 1884.993 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.062 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.110 kb on + strand, within Xcc-8004.1955.1at 1885.172 kb on + strand, within Xcc-8004.1955.1at 1885.172 kb on + strand, within Xcc-8004.1955.1at 1885.172 kb on + strand, within Xcc-8004.1955.1at 1885.173 kb on - strand, within Xcc-8004.1955.1at 1885.353 kb on + strand, within Xcc-8004.1955.1at 1885.353 kb on + strand, within Xcc-8004.1955.1at 1885.353 kb on + strand, within Xcc-8004.1955.1at 1885.353 kb on + strand, within Xcc-8004.1955.1at 1885.353 kb on + strand, within Xcc-8004.1955.1at 1885.353 kb on + strand, within Xcc-8004.1955.1at 1885.353 kb on + strand, within Xcc-8004.1955.1at 1885.355 kb on + strand, within Xcc-8004.1955.1at 1885.355 kb on + strand, within Xcc-8004.1955.1at 1885.356 kb on - strand, within Xcc-8004.1955.1at 1885.795 kb on + strandat 1885.795 kb on + strandat 1885.796 kb on - strandat 1885.987 kb on + strand, within Xcc-8004.1956.1at 1886.119 kb on + strand, within Xcc-8004.1956.1at 1886.119 kb on + strand, within Xcc-8004.1956.1at 1886.119 kb on + strand, within Xcc-8004.1956.1at 1886.264 kb on + strand, within Xcc-8004.1956.1at 1886.264 kb on + strand, within Xcc-8004.1956.1at 1886.264 kb on + strand, within Xcc-8004.1956.1at 1886.264 kb on + strand, within Xcc-8004.1956.1at 1886.264 kb on + strand, within Xcc-8004.1956.1at 1886.410 kb on + strand, within Xcc-8004.1956.1at 1886.410 kb on + strand, within Xcc-8004.1956.1at 1886.410 kb on + strand, within Xcc-8004.1956.1at 1886.410 kb on + strand, within Xcc-8004.1956.1at 1886.410 kb on + strand, within Xcc-8004.1956.1at 1886.410 kb on + strand, within Xcc-8004.1956.1at 1886.411 kb on - strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.464 kb on + strand, within Xcc-8004.1956.1at 1886.465 kb on - strand, within Xcc-8004.1956.1at 1886.465 kb on - strand, within Xcc-8004.1956.1at 1886.465 kb on - strand, within Xcc-8004.1956.1at 1886.465 kb on - strand, within Xcc-8004.1956.1at 1886.465 kb on - strand, within Xcc-8004.1956.1at 1886.465 kb on - strand, within Xcc-8004.1956.1at 1886.521 kb on + strand, within Xcc-8004.1956.1at 1886.521 kb on + strand, within Xcc-8004.1956.1at 1886.522 kb on - strand, within Xcc-8004.1956.1at 1886.680 kb on + strand, within Xcc-8004.1956.1at 1886.680 kb on + strand, within Xcc-8004.1956.1at 1886.681 kb on - strand, within Xcc-8004.1956.1at 1886.681 kb on - strand, within Xcc-8004.1956.1at 1886.745 kb on + strand, within Xcc-8004.1956.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Pectin from apple 2 g/L (C)
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1,883,833 + Xcc-8004.1953.1 0.48 -0.0
1,883,833 + Xcc-8004.1953.1 0.48 -1.4
1,883,833 + Xcc-8004.1953.1 0.48 -1.2
1,883,974 + Xcc-8004.1953.1 0.63 -0.1
1,883,974 + Xcc-8004.1953.1 0.63 -0.9
1,883,974 + Xcc-8004.1953.1 0.63 +0.4
1,883,974 + Xcc-8004.1953.1 0.63 -0.6
1,884,001 + Xcc-8004.1953.1 0.66 +0.2
1,884,040 + Xcc-8004.1953.1 0.71 +0.5
1,884,040 + Xcc-8004.1953.1 0.71 -0.4
1,884,040 + Xcc-8004.1953.1 0.71 -0.8
1,884,040 + Xcc-8004.1953.1 0.71 +0.9
1,884,046 + Xcc-8004.1953.1 0.71 -1.0
1,884,431 + Xcc-8004.1954.1 0.26 +0.7
1,884,431 + Xcc-8004.1954.1 0.26 -0.4
1,884,549 + Xcc-8004.1954.1 0.51 -0.8
1,884,549 + Xcc-8004.1954.1 0.51 +2.0
1,884,549 + Xcc-8004.1954.1 0.51 -1.7
1,884,549 + Xcc-8004.1954.1 0.51 -0.8
1,884,550 - Xcc-8004.1954.1 0.51 -1.0
1,884,550 - Xcc-8004.1954.1 0.51 -0.8
1,884,550 - Xcc-8004.1954.1 0.51 -1.4
1,884,550 - Xcc-8004.1954.1 0.51 -1.7
1,884,550 - Xcc-8004.1954.1 0.51 -0.8
1,884,550 - Xcc-8004.1954.1 0.51 -1.0
1,884,944 + Xcc-8004.1955.1 0.15 -0.7
1,884,993 + Xcc-8004.1955.1 0.19 -0.3
1,885,062 + Xcc-8004.1955.1 0.26 -2.0
1,885,062 + Xcc-8004.1955.1 0.26 -1.4
1,885,062 + Xcc-8004.1955.1 0.26 -1.1
1,885,062 + Xcc-8004.1955.1 0.26 -3.0
1,885,110 + Xcc-8004.1955.1 0.30 -0.6
1,885,110 + Xcc-8004.1955.1 0.30 -2.7
1,885,110 + Xcc-8004.1955.1 0.30 -3.4
1,885,110 + Xcc-8004.1955.1 0.30 -2.8
1,885,172 + Xcc-8004.1955.1 0.36 -1.6
1,885,172 + Xcc-8004.1955.1 0.36 -2.0
1,885,172 + Xcc-8004.1955.1 0.36 -1.9
1,885,173 - Xcc-8004.1955.1 0.36 -2.3
1,885,353 + Xcc-8004.1955.1 0.52 -0.1
1,885,353 + Xcc-8004.1955.1 0.52 -1.8
1,885,353 + Xcc-8004.1955.1 0.52 -1.8
1,885,353 + Xcc-8004.1955.1 0.52 -2.6
1,885,353 + Xcc-8004.1955.1 0.52 -1.8
1,885,353 + Xcc-8004.1955.1 0.52 -1.1
1,885,353 + Xcc-8004.1955.1 0.52 -1.6
1,885,355 + Xcc-8004.1955.1 0.52 -2.8
1,885,355 + Xcc-8004.1955.1 0.52 -2.2
1,885,356 - Xcc-8004.1955.1 0.52 +0.7
1,885,795 + -1.1
1,885,795 + -1.1
1,885,796 - -1.7
1,885,987 + Xcc-8004.1956.1 0.10 +1.0
1,886,119 + Xcc-8004.1956.1 0.23 -0.4
1,886,119 + Xcc-8004.1956.1 0.23 -0.8
1,886,119 + Xcc-8004.1956.1 0.23 -0.0
1,886,264 + Xcc-8004.1956.1 0.37 -0.0
1,886,264 + Xcc-8004.1956.1 0.37 +0.6
1,886,264 + Xcc-8004.1956.1 0.37 +0.7
1,886,264 + Xcc-8004.1956.1 0.37 -0.1
1,886,264 + Xcc-8004.1956.1 0.37 -0.1
1,886,410 + Xcc-8004.1956.1 0.50 -0.1
1,886,410 + Xcc-8004.1956.1 0.50 -1.1
1,886,410 + Xcc-8004.1956.1 0.50 -0.3
1,886,410 + Xcc-8004.1956.1 0.50 +2.1
1,886,410 + Xcc-8004.1956.1 0.50 -1.0
1,886,410 + Xcc-8004.1956.1 0.50 +0.0
1,886,411 - Xcc-8004.1956.1 0.51 -1.1
1,886,464 + Xcc-8004.1956.1 0.56 -0.1
1,886,464 + Xcc-8004.1956.1 0.56 +1.3
1,886,464 + Xcc-8004.1956.1 0.56 +1.0
1,886,464 + Xcc-8004.1956.1 0.56 -0.1
1,886,464 + Xcc-8004.1956.1 0.56 -0.1
1,886,464 + Xcc-8004.1956.1 0.56 +0.7
1,886,464 + Xcc-8004.1956.1 0.56 +0.7
1,886,464 + Xcc-8004.1956.1 0.56 -1.0
1,886,464 + Xcc-8004.1956.1 0.56 +1.4
1,886,465 - Xcc-8004.1956.1 0.56 -0.9
1,886,465 - Xcc-8004.1956.1 0.56 -1.6
1,886,465 - Xcc-8004.1956.1 0.56 -1.0
1,886,465 - Xcc-8004.1956.1 0.56 -0.7
1,886,465 - Xcc-8004.1956.1 0.56 -2.8
1,886,465 - Xcc-8004.1956.1 0.56 -0.3
1,886,521 + Xcc-8004.1956.1 0.61 -0.6
1,886,521 + Xcc-8004.1956.1 0.61 +0.8
1,886,522 - Xcc-8004.1956.1 0.61 -1.6
1,886,680 + Xcc-8004.1956.1 0.76 +0.2
1,886,680 + Xcc-8004.1956.1 0.76 +1.0
1,886,681 - Xcc-8004.1956.1 0.76 -1.4
1,886,681 - Xcc-8004.1956.1 0.76 -2.2
1,886,745 + Xcc-8004.1956.1 0.82 -0.2

Or see this region's nucleotide sequence