Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.2011.1

Experiment: Pectin from apple 2 g/L (C)

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-8004.2009.1 and Xcc-8004.2010.1 are separated by 8 nucleotidesXcc-8004.2010.1 and Xcc-8004.2011.1 are separated by 58 nucleotidesXcc-8004.2011.1 and Xcc-8004.2012.1 overlap by 4 nucleotides Xcc-8004.2009.1: Xcc-8004.2009.1 - Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19), at 1,934,796 to 1,935,668 Xcc-8004.2009.1 Xcc-8004.2010.1: Xcc-8004.2010.1 - FIG002473: Protein YcaR in KDO2-Lipid A biosynthesis cluster, at 1,935,677 to 1,935,946 Xcc-8004.2010.1 Xcc-8004.2011.1: Xcc-8004.2011.1 - Phosphoribosylaminoimidazole carboxylase catalytic subunit (EC 4.1.1.21), at 1,936,005 to 1,936,508 Xcc-8004.2011.1 Xcc-8004.2012.1: Xcc-8004.2012.1 - Phosphoribosylaminoimidazole carboxylase ATPase subunit (EC 4.1.1.21), at 1,936,505 to 1,937,647 Xcc-8004.2012.1 Position (kb) 1936 1937Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 1935.223 kb on + strand, within Xcc-8004.2009.1at 1935.223 kb on + strand, within Xcc-8004.2009.1at 1935.224 kb on - strand, within Xcc-8004.2009.1at 1935.224 kb on - strand, within Xcc-8004.2009.1at 1935.305 kb on - strand, within Xcc-8004.2009.1at 1935.305 kb on - strand, within Xcc-8004.2009.1at 1935.305 kb on - strand, within Xcc-8004.2009.1at 1935.443 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.534 kb on + strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.535 kb on - strand, within Xcc-8004.2009.1at 1935.538 kb on + strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.539 kb on - strand, within Xcc-8004.2009.1at 1935.975 kb on + strandat 1935.975 kb on + strandat 1935.975 kb on + strandat 1935.976 kb on - strandat 1935.976 kb on - strandat 1935.976 kb on - strandat 1935.976 kb on - strandat 1935.976 kb on - strandat 1935.976 kb on - strandat 1935.980 kb on + strandat 1935.980 kb on + strandat 1935.980 kb on + strandat 1935.980 kb on + strandat 1935.980 kb on + strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.981 kb on - strandat 1935.988 kb on + strandat 1935.989 kb on - strandat 1936.114 kb on - strand, within Xcc-8004.2011.1at 1936.165 kb on - strand, within Xcc-8004.2011.1at 1936.165 kb on - strand, within Xcc-8004.2011.1at 1936.165 kb on - strand, within Xcc-8004.2011.1at 1936.510 kb on + strandat 1936.510 kb on + strandat 1936.510 kb on + strandat 1936.510 kb on + strandat 1936.511 kb on - strandat 1936.511 kb on - strandat 1936.511 kb on - strandat 1936.668 kb on + strand, within Xcc-8004.2012.1at 1936.669 kb on - strand, within Xcc-8004.2012.1at 1936.669 kb on - strand, within Xcc-8004.2012.1at 1936.669 kb on - strand, within Xcc-8004.2012.1at 1936.669 kb on - strand, within Xcc-8004.2012.1at 1936.669 kb on - strand, within Xcc-8004.2012.1at 1936.719 kb on + strand, within Xcc-8004.2012.1at 1936.719 kb on + strand, within Xcc-8004.2012.1at 1936.720 kb on - strand, within Xcc-8004.2012.1at 1936.938 kb on - strand, within Xcc-8004.2012.1at 1937.234 kb on + strand, within Xcc-8004.2012.1at 1937.234 kb on + strand, within Xcc-8004.2012.1at 1937.234 kb on + strand, within Xcc-8004.2012.1at 1937.234 kb on + strand, within Xcc-8004.2012.1at 1937.234 kb on + strand, within Xcc-8004.2012.1at 1937.234 kb on + strand, within Xcc-8004.2012.1at 1937.234 kb on + strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1at 1937.235 kb on - strand, within Xcc-8004.2012.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Pectin from apple 2 g/L (C)
remove
1,935,223 + Xcc-8004.2009.1 0.49 -0.1
1,935,223 + Xcc-8004.2009.1 0.49 -0.1
1,935,224 - Xcc-8004.2009.1 0.49 -1.7
1,935,224 - Xcc-8004.2009.1 0.49 -1.8
1,935,305 - Xcc-8004.2009.1 0.58 -0.2
1,935,305 - Xcc-8004.2009.1 0.58 -1.0
1,935,305 - Xcc-8004.2009.1 0.58 -1.2
1,935,443 + Xcc-8004.2009.1 0.74 -1.0
1,935,534 + Xcc-8004.2009.1 0.85 -3.3
1,935,534 + Xcc-8004.2009.1 0.85 -0.5
1,935,534 + Xcc-8004.2009.1 0.85 -0.3
1,935,534 + Xcc-8004.2009.1 0.85 -1.7
1,935,534 + Xcc-8004.2009.1 0.85 +0.8
1,935,534 + Xcc-8004.2009.1 0.85 -1.1
1,935,534 + Xcc-8004.2009.1 0.85 -2.0
1,935,534 + Xcc-8004.2009.1 0.85 +0.6
1,935,534 + Xcc-8004.2009.1 0.85 -0.1
1,935,534 + Xcc-8004.2009.1 0.85 +0.9
1,935,534 + Xcc-8004.2009.1 0.85 +1.5
1,935,535 - Xcc-8004.2009.1 0.85 -0.2
1,935,535 - Xcc-8004.2009.1 0.85 -1.7
1,935,535 - Xcc-8004.2009.1 0.85 -0.1
1,935,535 - Xcc-8004.2009.1 0.85 +0.3
1,935,535 - Xcc-8004.2009.1 0.85 -1.7
1,935,535 - Xcc-8004.2009.1 0.85 +2.7
1,935,535 - Xcc-8004.2009.1 0.85 +0.0
1,935,535 - Xcc-8004.2009.1 0.85 -0.5
1,935,538 + Xcc-8004.2009.1 0.85 +0.4
1,935,539 - Xcc-8004.2009.1 0.85 -0.3
1,935,539 - Xcc-8004.2009.1 0.85 -0.2
1,935,539 - Xcc-8004.2009.1 0.85 +0.7
1,935,539 - Xcc-8004.2009.1 0.85 +0.4
1,935,539 - Xcc-8004.2009.1 0.85 -0.5
1,935,539 - Xcc-8004.2009.1 0.85 +0.7
1,935,539 - Xcc-8004.2009.1 0.85 +0.1
1,935,539 - Xcc-8004.2009.1 0.85 +0.7
1,935,975 + -2.7
1,935,975 + -0.6
1,935,975 + -1.1
1,935,976 - -0.7
1,935,976 - +0.3
1,935,976 - +0.4
1,935,976 - -0.7
1,935,976 - +0.8
1,935,976 - -0.5
1,935,980 + -0.2
1,935,980 + -2.3
1,935,980 + -1.8
1,935,980 + -0.1
1,935,980 + -1.4
1,935,981 - -0.3
1,935,981 - -1.3
1,935,981 - -2.1
1,935,981 - +0.8
1,935,981 - -0.7
1,935,981 - -1.5
1,935,981 - -1.0
1,935,981 - +0.3
1,935,981 - -2.6
1,935,981 - -2.0
1,935,981 - -1.4
1,935,981 - -0.4
1,935,988 + +0.3
1,935,989 - -1.8
1,936,114 - Xcc-8004.2011.1 0.22 -2.9
1,936,165 - Xcc-8004.2011.1 0.32 -1.7
1,936,165 - Xcc-8004.2011.1 0.32 -2.1
1,936,165 - Xcc-8004.2011.1 0.32 -1.8
1,936,510 + +0.8
1,936,510 + -0.7
1,936,510 + -0.7
1,936,510 + -0.1
1,936,511 - -4.0
1,936,511 - -3.3
1,936,511 - -1.6
1,936,668 + Xcc-8004.2012.1 0.14 -0.1
1,936,669 - Xcc-8004.2012.1 0.14 -2.7
1,936,669 - Xcc-8004.2012.1 0.14 -0.9
1,936,669 - Xcc-8004.2012.1 0.14 -0.4
1,936,669 - Xcc-8004.2012.1 0.14 -1.4
1,936,669 - Xcc-8004.2012.1 0.14 +0.7
1,936,719 + Xcc-8004.2012.1 0.19 -0.3
1,936,719 + Xcc-8004.2012.1 0.19 -1.0
1,936,720 - Xcc-8004.2012.1 0.19 -1.7
1,936,938 - Xcc-8004.2012.1 0.38 -0.3
1,937,234 + Xcc-8004.2012.1 0.64 -2.6
1,937,234 + Xcc-8004.2012.1 0.64 -2.4
1,937,234 + Xcc-8004.2012.1 0.64 -2.9
1,937,234 + Xcc-8004.2012.1 0.64 -2.0
1,937,234 + Xcc-8004.2012.1 0.64 -2.5
1,937,234 + Xcc-8004.2012.1 0.64 -2.6
1,937,234 + Xcc-8004.2012.1 0.64 -1.3
1,937,235 - Xcc-8004.2012.1 0.64 -1.3
1,937,235 - Xcc-8004.2012.1 0.64 -1.9
1,937,235 - Xcc-8004.2012.1 0.64 -2.4
1,937,235 - Xcc-8004.2012.1 0.64 -0.8
1,937,235 - Xcc-8004.2012.1 0.64 -0.7
1,937,235 - Xcc-8004.2012.1 0.64 -1.6
1,937,235 - Xcc-8004.2012.1 0.64 -0.7
1,937,235 - Xcc-8004.2012.1 0.64 -3.5
1,937,235 - Xcc-8004.2012.1 0.64 -2.3
1,937,235 - Xcc-8004.2012.1 0.64 -0.7

Or see this region's nucleotide sequence