Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.1330.1

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-8004.1328.1 and Xcc-8004.1329.1 are separated by 90 nucleotidesXcc-8004.1329.1 and Xcc-8004.1330.1 are separated by 224 nucleotidesXcc-8004.1330.1 and Xcc-8004.1331.1 are separated by 38 nucleotides Xcc-8004.1328.1: Xcc-8004.1328.1 - FIG01210090: hypothetical protein, at 1,259,894 to 1,260,343 Xcc-8004.1328.1 Xcc-8004.1329.1: Xcc-8004.1329.1 - Virulence regulator, at 1,260,434 to 1,260,826 Xcc-8004.1329.1 Xcc-8004.1330.1: Xcc-8004.1330.1 - hypothetical protein, at 1,261,051 to 1,261,326 Xcc-8004.1330.1 Xcc-8004.1331.1: Xcc-8004.1331.1 - Glycogen debranching enzyme (EC 3.2.1.-), at 1,261,365 to 1,263,692 Xcc-8004.1331.1 Position (kb) 1261 1262Strain fitness (log2 ratio) -2 -1 0 1 2at 1260.399 kb on + strandat 1260.399 kb on + strandat 1260.530 kb on + strand, within Xcc-8004.1329.1at 1260.530 kb on + strand, within Xcc-8004.1329.1at 1260.686 kb on + strand, within Xcc-8004.1329.1at 1260.686 kb on + strand, within Xcc-8004.1329.1at 1260.686 kb on + strand, within Xcc-8004.1329.1at 1260.686 kb on + strand, within Xcc-8004.1329.1at 1260.770 kb on + strand, within Xcc-8004.1329.1at 1260.771 kb on - strand, within Xcc-8004.1329.1at 1260.771 kb on - strand, within Xcc-8004.1329.1at 1260.773 kb on - strand, within Xcc-8004.1329.1at 1260.816 kb on - strandat 1260.816 kb on - strandat 1260.842 kb on + strandat 1260.861 kb on + strandat 1260.861 kb on + strandat 1260.862 kb on - strandat 1260.862 kb on - strandat 1260.862 kb on - strandat 1260.862 kb on - strandat 1260.977 kb on + strandat 1260.977 kb on + strandat 1260.978 kb on - strandat 1260.978 kb on - strandat 1260.978 kb on - strandat 1261.040 kb on - strandat 1261.077 kb on + strandat 1261.130 kb on + strand, within Xcc-8004.1330.1at 1261.130 kb on + strand, within Xcc-8004.1330.1at 1261.130 kb on + strand, within Xcc-8004.1330.1at 1261.146 kb on + strand, within Xcc-8004.1330.1at 1261.146 kb on + strand, within Xcc-8004.1330.1at 1261.147 kb on - strand, within Xcc-8004.1330.1at 1261.222 kb on - strand, within Xcc-8004.1330.1at 1261.238 kb on - strand, within Xcc-8004.1330.1at 1261.291 kb on + strand, within Xcc-8004.1330.1at 1261.291 kb on + strand, within Xcc-8004.1330.1at 1261.291 kb on + strand, within Xcc-8004.1330.1at 1261.292 kb on - strand, within Xcc-8004.1330.1at 1261.292 kb on - strand, within Xcc-8004.1330.1at 1261.292 kb on - strand, within Xcc-8004.1330.1at 1261.292 kb on - strand, within Xcc-8004.1330.1at 1261.301 kb on + strandat 1261.463 kb on + strandat 1261.618 kb on - strand, within Xcc-8004.1331.1at 1261.714 kb on + strand, within Xcc-8004.1331.1at 1261.714 kb on + strand, within Xcc-8004.1331.1at 1261.714 kb on + strand, within Xcc-8004.1331.1at 1261.760 kb on + strand, within Xcc-8004.1331.1at 1261.855 kb on + strand, within Xcc-8004.1331.1at 1261.855 kb on + strand, within Xcc-8004.1331.1at 1261.856 kb on - strand, within Xcc-8004.1331.1at 1262.011 kb on + strand, within Xcc-8004.1331.1at 1262.011 kb on + strand, within Xcc-8004.1331.1at 1262.011 kb on + strand, within Xcc-8004.1331.1at 1262.012 kb on - strand, within Xcc-8004.1331.1at 1262.084 kb on - strand, within Xcc-8004.1331.1at 1262.084 kb on - strand, within Xcc-8004.1331.1at 1262.105 kb on + strand, within Xcc-8004.1331.1at 1262.106 kb on - strand, within Xcc-8004.1331.1

download strain data

Per-strain Table

Position Strand Gene LocusTag Fraction Pectin from apple 2 g/L (C)
remove
1,260,399 + -0.5
1,260,399 + +1.1
1,260,530 + Xcc-8004.1329.1 0.24 +0.5
1,260,530 + Xcc-8004.1329.1 0.24 -0.4
1,260,686 + Xcc-8004.1329.1 0.64 +1.7
1,260,686 + Xcc-8004.1329.1 0.64 +1.3
1,260,686 + Xcc-8004.1329.1 0.64 -0.1
1,260,686 + Xcc-8004.1329.1 0.64 -1.4
1,260,770 + Xcc-8004.1329.1 0.85 +0.0
1,260,771 - Xcc-8004.1329.1 0.86 +1.3
1,260,771 - Xcc-8004.1329.1 0.86 +0.9
1,260,773 - Xcc-8004.1329.1 0.86 -0.1
1,260,816 - -0.2
1,260,816 - -0.3
1,260,842 + -1.2
1,260,861 + -0.4
1,260,861 + -0.2
1,260,862 - -0.6
1,260,862 - -0.1
1,260,862 - -0.3
1,260,862 - +0.5
1,260,977 + +0.5
1,260,977 + +1.6
1,260,978 - +1.7
1,260,978 - -0.7
1,260,978 - +0.7
1,261,040 - +1.4
1,261,077 + +0.3
1,261,130 + Xcc-8004.1330.1 0.29 +1.3
1,261,130 + Xcc-8004.1330.1 0.29 +0.5
1,261,130 + Xcc-8004.1330.1 0.29 +0.4
1,261,146 + Xcc-8004.1330.1 0.34 -0.2
1,261,146 + Xcc-8004.1330.1 0.34 -0.5
1,261,147 - Xcc-8004.1330.1 0.35 -0.5
1,261,222 - Xcc-8004.1330.1 0.62 +0.4
1,261,238 - Xcc-8004.1330.1 0.68 -0.8
1,261,291 + Xcc-8004.1330.1 0.87 -1.3
1,261,291 + Xcc-8004.1330.1 0.87 +0.3
1,261,291 + Xcc-8004.1330.1 0.87 +0.8
1,261,292 - Xcc-8004.1330.1 0.87 -1.6
1,261,292 - Xcc-8004.1330.1 0.87 -0.6
1,261,292 - Xcc-8004.1330.1 0.87 -1.3
1,261,292 - Xcc-8004.1330.1 0.87 -0.1
1,261,301 + +0.1
1,261,463 + +0.2
1,261,618 - Xcc-8004.1331.1 0.11 -0.4
1,261,714 + Xcc-8004.1331.1 0.15 -0.8
1,261,714 + Xcc-8004.1331.1 0.15 +0.0
1,261,714 + Xcc-8004.1331.1 0.15 +0.2
1,261,760 + Xcc-8004.1331.1 0.17 +2.0
1,261,855 + Xcc-8004.1331.1 0.21 +1.1
1,261,855 + Xcc-8004.1331.1 0.21 -1.8
1,261,856 - Xcc-8004.1331.1 0.21 -0.2
1,262,011 + Xcc-8004.1331.1 0.28 -0.3
1,262,011 + Xcc-8004.1331.1 0.28 +0.1
1,262,011 + Xcc-8004.1331.1 0.28 -0.2
1,262,012 - Xcc-8004.1331.1 0.28 -0.8
1,262,084 - Xcc-8004.1331.1 0.31 +0.3
1,262,084 - Xcc-8004.1331.1 0.31 -0.9
1,262,105 + Xcc-8004.1331.1 0.32 +1.0
1,262,106 - Xcc-8004.1331.1 0.32 +0.2

Or see this region's nucleotide sequence