Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1136.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant

Add experiment(s):

Zoom: Pan:

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.

download SVG
500 ntXcc-8004.1134.1 and Xcc-8004.1135.1 are separated by 85 nucleotidesXcc-8004.1135.1 and Xcc-8004.1136.1 are separated by 132 nucleotidesXcc-8004.1136.1 and Xcc-8004.1137.1 are separated by 101 nucleotidesXcc-8004.1137.1 and Xcc-8004.1138.1 overlap by 4 nucleotides Xcc-8004.1134.1: Xcc-8004.1134.1 - Protein sirB1, at 1,081,697 to 1,082,533 Xcc-8004.1134.1 Xcc-8004.1135.1: Xcc-8004.1135.1 - FIG01210448: hypothetical protein, at 1,082,619 to 1,083,068 Xcc-8004.1135.1 Xcc-8004.1136.1: Xcc-8004.1136.1 - Ribose 5-phosphate isomerase A (EC 5.3.1.6), at 1,083,201 to 1,083,848 Xcc-8004.1136.1 Xcc-8004.1137.1: Xcc-8004.1137.1 - FIG006231: RNA-binding protein, at 1,083,950 to 1,084,420 Xcc-8004.1137.1 Xcc-8004.1138.1: Xcc-8004.1138.1 - 5-formyltetrahydrofolate cyclo-ligase (EC 6.3.3.2), at 1,084,417 to 1,085,058 Xcc-8004.1138.1 Position (kb) 1083 1084Strain fitness (log2 ratio) -2 -1 0 1 2at 1082.259 kb on + strand, within Xcc-8004.1134.1at 1082.259 kb on + strand, within Xcc-8004.1134.1at 1082.259 kb on + strand, within Xcc-8004.1134.1at 1082.259 kb on + strand, within Xcc-8004.1134.1at 1082.260 kb on - strand, within Xcc-8004.1134.1at 1082.260 kb on - strand, within Xcc-8004.1134.1at 1082.277 kb on + strand, within Xcc-8004.1134.1at 1082.277 kb on + strand, within Xcc-8004.1134.1at 1082.277 kb on + strand, within Xcc-8004.1134.1at 1082.280 kb on + strand, within Xcc-8004.1134.1at 1082.281 kb on - strand, within Xcc-8004.1134.1at 1082.302 kb on - strand, within Xcc-8004.1134.1at 1082.323 kb on - strand, within Xcc-8004.1134.1at 1082.323 kb on - strand, within Xcc-8004.1134.1at 1082.415 kb on + strand, within Xcc-8004.1134.1at 1082.416 kb on - strand, within Xcc-8004.1134.1at 1082.416 kb on - strand, within Xcc-8004.1134.1at 1082.459 kb on + strandat 1082.459 kb on + strandat 1082.651 kb on + strandat 1082.713 kb on + strand, within Xcc-8004.1135.1at 1082.738 kb on - strand, within Xcc-8004.1135.1at 1082.815 kb on + strand, within Xcc-8004.1135.1at 1082.854 kb on + strand, within Xcc-8004.1135.1at 1082.971 kb on + strand, within Xcc-8004.1135.1at 1083.202 kb on + strandat 1083.203 kb on - strandat 1083.203 kb on - strandat 1083.203 kb on - strandat 1083.203 kb on - strandat 1083.203 kb on - strandat 1083.852 kb on + strandat 1083.853 kb on - strandat 1083.853 kb on - strandat 1083.951 kb on + strandat 1084.161 kb on + strand, within Xcc-8004.1137.1at 1084.257 kb on + strand, within Xcc-8004.1137.1at 1084.314 kb on + strand, within Xcc-8004.1137.1at 1084.589 kb on + strand, within Xcc-8004.1138.1at 1084.589 kb on + strand, within Xcc-8004.1138.1at 1084.590 kb on - strand, within Xcc-8004.1138.1at 1084.590 kb on - strand, within Xcc-8004.1138.1at 1084.794 kb on - strand, within Xcc-8004.1138.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI dcr2mutant
remove
1,082,259 + Xcc-8004.1134.1 0.67 -1.5
1,082,259 + Xcc-8004.1134.1 0.67 -0.1
1,082,259 + Xcc-8004.1134.1 0.67 -0.6
1,082,259 + Xcc-8004.1134.1 0.67 -0.7
1,082,260 - Xcc-8004.1134.1 0.67 -0.5
1,082,260 - Xcc-8004.1134.1 0.67 -1.0
1,082,277 + Xcc-8004.1134.1 0.69 -1.0
1,082,277 + Xcc-8004.1134.1 0.69 -0.8
1,082,277 + Xcc-8004.1134.1 0.69 -0.7
1,082,280 + Xcc-8004.1134.1 0.70 +0.8
1,082,281 - Xcc-8004.1134.1 0.70 -1.1
1,082,302 - Xcc-8004.1134.1 0.72 +1.5
1,082,323 - Xcc-8004.1134.1 0.75 +1.0
1,082,323 - Xcc-8004.1134.1 0.75 -1.6
1,082,415 + Xcc-8004.1134.1 0.86 -1.0
1,082,416 - Xcc-8004.1134.1 0.86 -0.1
1,082,416 - Xcc-8004.1134.1 0.86 -1.1
1,082,459 + -0.7
1,082,459 + -2.4
1,082,651 + +0.1
1,082,713 + Xcc-8004.1135.1 0.21 +0.5
1,082,738 - Xcc-8004.1135.1 0.26 -0.2
1,082,815 + Xcc-8004.1135.1 0.44 -1.3
1,082,854 + Xcc-8004.1135.1 0.52 +2.7
1,082,971 + Xcc-8004.1135.1 0.78 -0.6
1,083,202 + +0.7
1,083,203 - -0.1
1,083,203 - +0.6
1,083,203 - +0.9
1,083,203 - +0.3
1,083,203 - -0.1
1,083,852 + +0.3
1,083,853 - -1.3
1,083,853 - +0.7
1,083,951 + -0.6
1,084,161 + Xcc-8004.1137.1 0.45 -1.9
1,084,257 + Xcc-8004.1137.1 0.65 +0.5
1,084,314 + Xcc-8004.1137.1 0.77 -2.2
1,084,589 + Xcc-8004.1138.1 0.27 -1.2
1,084,589 + Xcc-8004.1138.1 0.27 +0.3
1,084,590 - Xcc-8004.1138.1 0.27 -1.3
1,084,590 - Xcc-8004.1138.1 0.27 -1.0
1,084,794 - Xcc-8004.1138.1 0.59 -0.3

Or see this region's nucleotide sequence