Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.997.1

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

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-8004.995.1 and Xcc-8004.996.1 are separated by 0 nucleotidesXcc-8004.996.1 and Xcc-8004.997.1 are separated by 185 nucleotidesXcc-8004.997.1 and Xcc-8004.998.1 are separated by 1 nucleotidesXcc-8004.998.1 and Xcc-8004.999.1 are separated by 267 nucleotides Xcc-8004.995.1: Xcc-8004.995.1 - rhamnogalacturonase B, at 942,977 to 943,399 Xcc-8004.995.1 Xcc-8004.996.1: Xcc-8004.996.1 - Rhamnogalacturonate lyase precursor (EC 4.2.2.-), at 943,400 to 944,101 Xcc-8004.996.1 Xcc-8004.997.1: Xcc-8004.997.1 - Possible GRAM domain, at 944,287 to 944,658 Xcc-8004.997.1 Xcc-8004.998.1: Xcc-8004.998.1 - putative; ORF located using Glimmer/Genemark, at 944,660 to 945,202 Xcc-8004.998.1 Xcc-8004.999.1: Xcc-8004.999.1 - putative; ORF located using Glimmer/Genemark, at 945,470 to 945,889 Xcc-8004.999.1 Position (kb) 944 945Strain fitness (log2 ratio) -3 -2 -1 0 1at 943.401 kb on + strandat 943.401 kb on + strandat 943.401 kb on + strandat 943.401 kb on + strandat 943.401 kb on + strandat 943.401 kb on + strandat 943.402 kb on - strandat 943.402 kb on - strandat 943.408 kb on - strandat 943.561 kb on - strand, within Xcc-8004.996.1at 943.734 kb on + strand, within Xcc-8004.996.1at 943.735 kb on - strand, within Xcc-8004.996.1at 943.735 kb on - strand, within Xcc-8004.996.1at 943.735 kb on - strand, within Xcc-8004.996.1at 943.735 kb on - strand, within Xcc-8004.996.1at 943.764 kb on + strand, within Xcc-8004.996.1at 943.764 kb on + strand, within Xcc-8004.996.1at 943.765 kb on - strand, within Xcc-8004.996.1at 943.765 kb on - strand, within Xcc-8004.996.1at 943.765 kb on - strand, within Xcc-8004.996.1at 943.765 kb on - strand, within Xcc-8004.996.1at 943.767 kb on + strand, within Xcc-8004.996.1at 943.768 kb on - strand, within Xcc-8004.996.1at 944.034 kb on + strandat 944.035 kb on - strandat 944.127 kb on + strandat 944.375 kb on - strand, within Xcc-8004.997.1at 944.375 kb on - strand, within Xcc-8004.997.1at 944.375 kb on - strand, within Xcc-8004.997.1at 944.375 kb on - strand, within Xcc-8004.997.1at 945.069 kb on + strand, within Xcc-8004.998.1at 945.070 kb on - strand, within Xcc-8004.998.1at 945.097 kb on - strand, within Xcc-8004.998.1at 945.483 kb on - strandat 945.483 kb on - strandat 945.483 kb on - strandat 945.521 kb on + strand, within Xcc-8004.999.1at 945.521 kb on + strand, within Xcc-8004.999.1at 945.521 kb on + strand, within Xcc-8004.999.1at 945.535 kb on - strand, within Xcc-8004.999.1at 945.558 kb on + strand, within Xcc-8004.999.1at 945.559 kb on - strand, within Xcc-8004.999.1at 945.559 kb on - strand, within Xcc-8004.999.1at 945.603 kb on + strand, within Xcc-8004.999.1at 945.604 kb on - strand, within Xcc-8004.999.1at 945.604 kb on - strand, within Xcc-8004.999.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Supernatant; Trichoderma atroviride IMI dcr22mutant grown in Vogels_fungal_media, filtered; 0.2X
remove
943,401 + -1.0
943,401 + -0.4
943,401 + -0.6
943,401 + -1.6
943,401 + -1.6
943,401 + -0.7
943,402 - +0.1
943,402 - -0.3
943,408 - -0.1
943,561 - Xcc-8004.996.1 0.23 -0.3
943,734 + Xcc-8004.996.1 0.48 -0.8
943,735 - Xcc-8004.996.1 0.48 +0.1
943,735 - Xcc-8004.996.1 0.48 +0.3
943,735 - Xcc-8004.996.1 0.48 -0.5
943,735 - Xcc-8004.996.1 0.48 -1.0
943,764 + Xcc-8004.996.1 0.52 +0.2
943,764 + Xcc-8004.996.1 0.52 +0.1
943,765 - Xcc-8004.996.1 0.52 -0.3
943,765 - Xcc-8004.996.1 0.52 -1.1
943,765 - Xcc-8004.996.1 0.52 -0.3
943,765 - Xcc-8004.996.1 0.52 +0.1
943,767 + Xcc-8004.996.1 0.52 +0.5
943,768 - Xcc-8004.996.1 0.52 +0.4
944,034 + -0.5
944,035 - +0.5
944,127 + -0.7
944,375 - Xcc-8004.997.1 0.24 -2.8
944,375 - Xcc-8004.997.1 0.24 -0.4
944,375 - Xcc-8004.997.1 0.24 -0.7
944,375 - Xcc-8004.997.1 0.24 -0.8
945,069 + Xcc-8004.998.1 0.75 -1.7
945,070 - Xcc-8004.998.1 0.76 -0.1
945,097 - Xcc-8004.998.1 0.80 +0.1
945,483 - -0.1
945,483 - -0.2
945,483 - +0.2
945,521 + Xcc-8004.999.1 0.12 -1.3
945,521 + Xcc-8004.999.1 0.12 -0.5
945,521 + Xcc-8004.999.1 0.12 -0.2
945,535 - Xcc-8004.999.1 0.15 -0.1
945,558 + Xcc-8004.999.1 0.21 -0.2
945,559 - Xcc-8004.999.1 0.21 -0.5
945,559 - Xcc-8004.999.1 0.21 -0.6
945,603 + Xcc-8004.999.1 0.32 -0.2
945,604 - Xcc-8004.999.1 0.32 +0.0
945,604 - Xcc-8004.999.1 0.32 -0.0

Or see this region's nucleotide sequence