Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.187.1

Experiment: 1600 hydathodes 6 dpi (Dna extract from 8 * 200 hydathodes and pooled together)

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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-8004.186.1 and Xcc-8004.187.1 are separated by 72 nucleotidesXcc-8004.187.1 and Xcc-8004.188.1 overlap by 101 nucleotidesXcc-8004.188.1 and Xcc-8004.189.1 overlap by 4 nucleotidesXcc-8004.189.1 and Xcc-8004.192.1 are separated by 381 nucleotides Xcc-8004.186.1: Xcc-8004.186.1 - 1,4-alpha-glucan (glycogen) branching enzyme, GH-13-type (EC 2.4.1.18), at 181,494 to 183,689 Xcc-8004.186.1 Xcc-8004.187.1: Xcc-8004.187.1 - Mobile element protein, at 183,762 to 184,280 Xcc-8004.187.1 Xcc-8004.188.1: Xcc-8004.188.1 - Mobile element protein, at 184,180 to 184,344 Xcc-8004.188.1 Xcc-8004.189.1: Xcc-8004.189.1 - Mobile element protein, at 184,341 to 184,532 Xcc-8004.189.1 Xcc-8004.192.1: Xcc-8004.192.1 - putative; ORF located using Glimmer/Genemark, at 184,914 to 185,408 Xcc-8004.192.1 Position (kb) 183 184 185Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 182.943 kb on + strand, within Xcc-8004.186.1at 182.943 kb on + strand, within Xcc-8004.186.1at 182.944 kb on - strand, within Xcc-8004.186.1at 182.982 kb on + strand, within Xcc-8004.186.1at 182.982 kb on + strand, within Xcc-8004.186.1at 182.982 kb on + strand, within Xcc-8004.186.1at 182.982 kb on + strand, within Xcc-8004.186.1at 182.983 kb on - strand, within Xcc-8004.186.1at 182.983 kb on - strand, within Xcc-8004.186.1at 182.983 kb on - strand, within Xcc-8004.186.1at 182.983 kb on - strand, within Xcc-8004.186.1at 182.983 kb on - strand, within Xcc-8004.186.1at 183.003 kb on + strand, within Xcc-8004.186.1at 183.045 kb on + strand, within Xcc-8004.186.1at 183.045 kb on + strand, within Xcc-8004.186.1at 183.045 kb on + strand, within Xcc-8004.186.1at 183.045 kb on + strand, within Xcc-8004.186.1at 183.046 kb on - strand, within Xcc-8004.186.1at 183.046 kb on - strand, within Xcc-8004.186.1at 183.046 kb on - strand, within Xcc-8004.186.1at 183.046 kb on - strand, within Xcc-8004.186.1at 183.046 kb on - strand, within Xcc-8004.186.1at 183.051 kb on + strand, within Xcc-8004.186.1at 183.340 kb on - strand, within Xcc-8004.186.1at 183.474 kb on + strandat 183.474 kb on + strandat 183.474 kb on + strandat 183.474 kb on + strandat 183.561 kb on + strandat 183.561 kb on + strandat 183.738 kb on + strandat 183.739 kb on - strandat 183.739 kb on - strandat 183.739 kb on - strandat 183.753 kb on - strandat 183.753 kb on - strandat 183.778 kb on - strandat 183.778 kb on - strandat 183.778 kb on - strandat 183.778 kb on - strandat 183.781 kb on - strandat 184.354 kb on + strandat 184.355 kb on - strandat 184.355 kb on - strandat 184.427 kb on - strand, within Xcc-8004.189.1at 184.603 kb on + strandat 184.616 kb on - strandat 184.622 kb on + strandat 184.623 kb on - strandat 184.623 kb on - strandat 184.670 kb on + strandat 184.670 kb on + strandat 184.671 kb on - strandat 184.671 kb on - strandat 184.671 kb on - strandat 184.678 kb on + strandat 184.678 kb on + strandat 184.678 kb on + strandat 184.678 kb on + strandat 184.679 kb on - strandat 184.890 kb on + strandat 185.066 kb on + strand, within Xcc-8004.192.1at 185.066 kb on + strand, within Xcc-8004.192.1at 185.066 kb on + strand, within Xcc-8004.192.1at 185.066 kb on + strand, within Xcc-8004.192.1at 185.066 kb on + strand, within Xcc-8004.192.1at 185.067 kb on - strand, within Xcc-8004.192.1at 185.067 kb on - strand, within Xcc-8004.192.1at 185.067 kb on - strand, within Xcc-8004.192.1at 185.067 kb on - strand, within Xcc-8004.192.1at 185.074 kb on + strand, within Xcc-8004.192.1at 185.075 kb on - strand, within Xcc-8004.192.1at 185.114 kb on + strand, within Xcc-8004.192.1at 185.114 kb on + strand, within Xcc-8004.192.1at 185.114 kb on + strand, within Xcc-8004.192.1at 185.114 kb on + strand, within Xcc-8004.192.1at 185.133 kb on + strand, within Xcc-8004.192.1at 185.170 kb on - strand, within Xcc-8004.192.1at 185.170 kb on - strand, within Xcc-8004.192.1

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Per-strain Table

Position Strand Gene LocusTag Fraction 1600 hydathodes 6 dpi (Dna extract from 8 * 200 hydathodes and pooled together)
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182,943 + Xcc-8004.186.1 0.66 -0.6
182,943 + Xcc-8004.186.1 0.66 +0.2
182,944 - Xcc-8004.186.1 0.66 -2.2
182,982 + Xcc-8004.186.1 0.68 +0.6
182,982 + Xcc-8004.186.1 0.68 +1.2
182,982 + Xcc-8004.186.1 0.68 -1.9
182,982 + Xcc-8004.186.1 0.68 -0.8
182,983 - Xcc-8004.186.1 0.68 -2.6
182,983 - Xcc-8004.186.1 0.68 -1.0
182,983 - Xcc-8004.186.1 0.68 -2.6
182,983 - Xcc-8004.186.1 0.68 -2.0
182,983 - Xcc-8004.186.1 0.68 -2.7
183,003 + Xcc-8004.186.1 0.69 -0.8
183,045 + Xcc-8004.186.1 0.71 -2.5
183,045 + Xcc-8004.186.1 0.71 +1.2
183,045 + Xcc-8004.186.1 0.71 -1.7
183,045 + Xcc-8004.186.1 0.71 -0.8
183,046 - Xcc-8004.186.1 0.71 -2.6
183,046 - Xcc-8004.186.1 0.71 -3.1
183,046 - Xcc-8004.186.1 0.71 -1.8
183,046 - Xcc-8004.186.1 0.71 -1.4
183,046 - Xcc-8004.186.1 0.71 -1.2
183,051 + Xcc-8004.186.1 0.71 +0.5
183,340 - Xcc-8004.186.1 0.84 -3.2
183,474 + -2.9
183,474 + -0.9
183,474 + +0.1
183,474 + +0.2
183,561 + -1.8
183,561 + -2.1
183,738 + -2.4
183,739 - -0.4
183,739 - +0.8
183,739 - +0.2
183,753 - -2.4
183,753 - -0.2
183,778 - -0.1
183,778 - -0.6
183,778 - -0.1
183,778 - -0.4
183,781 - +0.6
184,354 + -0.1
184,355 - -1.8
184,355 - -1.2
184,427 - Xcc-8004.189.1 0.45 -1.8
184,603 + -0.8
184,616 - +1.5
184,622 + +0.8
184,623 - -1.8
184,623 - -1.5
184,670 + +0.4
184,670 + +0.8
184,671 - +0.3
184,671 - +0.4
184,671 - +0.4
184,678 + -1.7
184,678 + -0.1
184,678 + +0.3
184,678 + -0.8
184,679 - +1.0
184,890 + -0.6
185,066 + Xcc-8004.192.1 0.31 -1.4
185,066 + Xcc-8004.192.1 0.31 -0.1
185,066 + Xcc-8004.192.1 0.31 +0.1
185,066 + Xcc-8004.192.1 0.31 -1.0
185,066 + Xcc-8004.192.1 0.31 -0.5
185,067 - Xcc-8004.192.1 0.31 -0.3
185,067 - Xcc-8004.192.1 0.31 -1.9
185,067 - Xcc-8004.192.1 0.31 -0.3
185,067 - Xcc-8004.192.1 0.31 +0.6
185,074 + Xcc-8004.192.1 0.32 +0.4
185,075 - Xcc-8004.192.1 0.33 -1.2
185,114 + Xcc-8004.192.1 0.40 -1.2
185,114 + Xcc-8004.192.1 0.40 -1.4
185,114 + Xcc-8004.192.1 0.40 +2.8
185,114 + Xcc-8004.192.1 0.40 -0.7
185,133 + Xcc-8004.192.1 0.44 +0.9
185,170 - Xcc-8004.192.1 0.52 -0.1
185,170 - Xcc-8004.192.1 0.52 -0.4

Or see this region's nucleotide sequence