Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.2004.1

Experiment: Clovis xylem sap

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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-8004.2002.1 and Xcc-8004.2003.1 are separated by 115 nucleotidesXcc-8004.2003.1 and Xcc-8004.2004.1 are separated by 78 nucleotidesXcc-8004.2004.1 and Xcc-8004.2005.1 are separated by 157 nucleotidesXcc-8004.2005.1 and Xcc-8004.2006.1 are separated by 80 nucleotides Xcc-8004.2002.1: Xcc-8004.2002.1 - Translation initiation factor 2, at 1,926,023 to 1,928,731 Xcc-8004.2002.1 Xcc-8004.2003.1: Xcc-8004.2003.1 - Ribosome-binding factor A, at 1,928,847 to 1,929,239 Xcc-8004.2003.1 Xcc-8004.2004.1: Xcc-8004.2004.1 - tRNA pseudouridine synthase B (EC 4.2.1.70), at 1,929,318 to 1,930,244 Xcc-8004.2004.1 Xcc-8004.2005.1: Xcc-8004.2005.1 - SSU ribosomal protein S15p (S13e), at 1,930,402 to 1,930,662 Xcc-8004.2005.1 Xcc-8004.2006.1: Xcc-8004.2006.1 - Polyribonucleotide nucleotidyltransferase (EC 2.7.7.8), at 1,930,743 to 1,932,950 Xcc-8004.2006.1 Position (kb) 1929 1930 1931Strain fitness (log2 ratio) -2 -1 0 1 2at 1928.722 kb on + strandat 1928.722 kb on + strandat 1928.729 kb on + strandat 1928.729 kb on + strandat 1928.729 kb on + strandat 1928.729 kb on + strandat 1928.729 kb on + strandat 1928.729 kb on + strandat 1928.729 kb on + strandat 1929.540 kb on + strand, within Xcc-8004.2004.1at 1929.541 kb on - strand, within Xcc-8004.2004.1at 1929.541 kb on - strand, within Xcc-8004.2004.1at 1929.616 kb on + strand, within Xcc-8004.2004.1at 1929.693 kb on + strand, within Xcc-8004.2004.1at 1929.694 kb on - strand, within Xcc-8004.2004.1at 1929.726 kb on + strand, within Xcc-8004.2004.1at 1929.726 kb on + strand, within Xcc-8004.2004.1at 1929.727 kb on - strand, within Xcc-8004.2004.1at 1929.727 kb on - strand, within Xcc-8004.2004.1at 1929.804 kb on + strand, within Xcc-8004.2004.1at 1929.804 kb on + strand, within Xcc-8004.2004.1at 1929.804 kb on + strand, within Xcc-8004.2004.1at 1929.804 kb on + strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.805 kb on - strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.852 kb on + strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.853 kb on - strand, within Xcc-8004.2004.1at 1929.854 kb on + strand, within Xcc-8004.2004.1at 1929.854 kb on + strand, within Xcc-8004.2004.1at 1929.854 kb on + strand, within Xcc-8004.2004.1at 1929.855 kb on - strand, within Xcc-8004.2004.1at 1929.855 kb on - strand, within Xcc-8004.2004.1at 1929.855 kb on - strand, within Xcc-8004.2004.1at 1930.211 kb on - strandat 1930.211 kb on - strandat 1930.211 kb on - strandat 1930.242 kb on + strandat 1930.249 kb on + strandat 1930.280 kb on + strandat 1930.280 kb on + strandat 1930.280 kb on + strandat 1930.671 kb on + strandat 1930.732 kb on + strandat 1930.732 kb on + strandat 1930.814 kb on + strandat 1930.814 kb on + strandat 1930.814 kb on + strandat 1930.814 kb on + strandat 1930.814 kb on + strandat 1930.814 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Clovis xylem sap
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1,928,722 + +0.0
1,928,722 + -0.3
1,928,729 + -0.2
1,928,729 + +1.3
1,928,729 + -1.5
1,928,729 + -0.8
1,928,729 + -0.2
1,928,729 + -0.2
1,928,729 + +0.9
1,929,540 + Xcc-8004.2004.1 0.24 +0.0
1,929,541 - Xcc-8004.2004.1 0.24 -2.1
1,929,541 - Xcc-8004.2004.1 0.24 -0.0
1,929,616 + Xcc-8004.2004.1 0.32 +1.1
1,929,693 + Xcc-8004.2004.1 0.40 -0.0
1,929,694 - Xcc-8004.2004.1 0.41 -0.5
1,929,726 + Xcc-8004.2004.1 0.44 +0.3
1,929,726 + Xcc-8004.2004.1 0.44 -0.3
1,929,727 - Xcc-8004.2004.1 0.44 +0.6
1,929,727 - Xcc-8004.2004.1 0.44 -0.9
1,929,804 + Xcc-8004.2004.1 0.52 +1.0
1,929,804 + Xcc-8004.2004.1 0.52 -1.5
1,929,804 + Xcc-8004.2004.1 0.52 -0.4
1,929,804 + Xcc-8004.2004.1 0.52 -0.4
1,929,805 - Xcc-8004.2004.1 0.53 -0.1
1,929,805 - Xcc-8004.2004.1 0.53 +0.3
1,929,805 - Xcc-8004.2004.1 0.53 +0.8
1,929,805 - Xcc-8004.2004.1 0.53 +1.5
1,929,805 - Xcc-8004.2004.1 0.53 +0.9
1,929,805 - Xcc-8004.2004.1 0.53 +0.0
1,929,805 - Xcc-8004.2004.1 0.53 -0.4
1,929,805 - Xcc-8004.2004.1 0.53 +1.2
1,929,805 - Xcc-8004.2004.1 0.53 +0.1
1,929,805 - Xcc-8004.2004.1 0.53 +0.6
1,929,852 + Xcc-8004.2004.1 0.58 -0.3
1,929,852 + Xcc-8004.2004.1 0.58 +1.0
1,929,852 + Xcc-8004.2004.1 0.58 +2.6
1,929,852 + Xcc-8004.2004.1 0.58 +0.8
1,929,852 + Xcc-8004.2004.1 0.58 +0.6
1,929,852 + Xcc-8004.2004.1 0.58 -0.5
1,929,852 + Xcc-8004.2004.1 0.58 +0.2
1,929,852 + Xcc-8004.2004.1 0.58 -0.5
1,929,852 + Xcc-8004.2004.1 0.58 -0.1
1,929,852 + Xcc-8004.2004.1 0.58 +0.4
1,929,852 + Xcc-8004.2004.1 0.58 +0.3
1,929,852 + Xcc-8004.2004.1 0.58 -0.1
1,929,852 + Xcc-8004.2004.1 0.58 +0.3
1,929,852 + Xcc-8004.2004.1 0.58 +0.1
1,929,852 + Xcc-8004.2004.1 0.58 +0.1
1,929,852 + Xcc-8004.2004.1 0.58 +0.4
1,929,852 + Xcc-8004.2004.1 0.58 -0.8
1,929,852 + Xcc-8004.2004.1 0.58 -0.7
1,929,852 + Xcc-8004.2004.1 0.58 -0.4
1,929,852 + Xcc-8004.2004.1 0.58 -0.4
1,929,852 + Xcc-8004.2004.1 0.58 +1.1
1,929,853 - Xcc-8004.2004.1 0.58 -0.2
1,929,853 - Xcc-8004.2004.1 0.58 -0.1
1,929,853 - Xcc-8004.2004.1 0.58 -0.1
1,929,853 - Xcc-8004.2004.1 0.58 -0.1
1,929,853 - Xcc-8004.2004.1 0.58 +1.0
1,929,853 - Xcc-8004.2004.1 0.58 +0.6
1,929,853 - Xcc-8004.2004.1 0.58 -1.9
1,929,853 - Xcc-8004.2004.1 0.58 +2.1
1,929,853 - Xcc-8004.2004.1 0.58 +1.5
1,929,853 - Xcc-8004.2004.1 0.58 -1.5
1,929,853 - Xcc-8004.2004.1 0.58 +2.2
1,929,853 - Xcc-8004.2004.1 0.58 -2.5
1,929,853 - Xcc-8004.2004.1 0.58 +0.5
1,929,853 - Xcc-8004.2004.1 0.58 +1.3
1,929,853 - Xcc-8004.2004.1 0.58 +0.7
1,929,853 - Xcc-8004.2004.1 0.58 -0.7
1,929,853 - Xcc-8004.2004.1 0.58 +2.6
1,929,854 + Xcc-8004.2004.1 0.58 -0.1
1,929,854 + Xcc-8004.2004.1 0.58 +0.5
1,929,854 + Xcc-8004.2004.1 0.58 -1.0
1,929,855 - Xcc-8004.2004.1 0.58 -0.0
1,929,855 - Xcc-8004.2004.1 0.58 -0.1
1,929,855 - Xcc-8004.2004.1 0.58 +0.4
1,930,211 - -0.3
1,930,211 - -1.1
1,930,211 - -0.4
1,930,242 + -1.1
1,930,249 + -0.5
1,930,280 + -1.1
1,930,280 + -0.1
1,930,280 + -0.6
1,930,671 + +0.9
1,930,732 + +0.1
1,930,732 + -0.3
1,930,814 + -0.3
1,930,814 + +0.6
1,930,814 + +0.9
1,930,814 + +0.1
1,930,814 + -1.2
1,930,814 + +0.3

Or see this region's nucleotide sequence