Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.417.1

Experiment: Plant=Cauliflower; Treatment=None; Sample=Mesophyll; Collection=Direct; Time=3_days

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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-8004.415.1 and Xcc-8004.416.1 are separated by 65 nucleotidesXcc-8004.416.1 and Xcc-8004.417.1 are separated by 218 nucleotidesXcc-8004.417.1 and Xcc-8004.418.1 are separated by 137 nucleotidesXcc-8004.418.1 and Xcc-8004.419.1 are separated by 2 nucleotides Xcc-8004.415.1: Xcc-8004.415.1 - putative; ORF located using Glimmer/Genemark, at 401,192 to 401,983 Xcc-8004.415.1 Xcc-8004.416.1: Xcc-8004.416.1 - AttT protein, at 402,049 to 402,507 Xcc-8004.416.1 Xcc-8004.417.1: Xcc-8004.417.1 - hypothetical protein, at 402,726 to 403,127 Xcc-8004.417.1 Xcc-8004.418.1: Xcc-8004.418.1 - hypothetical protein, at 403,265 to 403,720 Xcc-8004.418.1 Xcc-8004.419.1: Xcc-8004.419.1 - putative; ORF located using Glimmer/Genemark, at 403,723 to 404,553 Xcc-8004.419.1 Position (kb) 402 403 404Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 401.948 kb on + strandat 401.998 kb on + strandat 402.051 kb on - strandat 402.109 kb on - strand, within Xcc-8004.416.1at 402.112 kb on + strand, within Xcc-8004.416.1at 402.112 kb on + strand, within Xcc-8004.416.1at 402.112 kb on + strand, within Xcc-8004.416.1at 402.112 kb on + strand, within Xcc-8004.416.1at 402.112 kb on + strand, within Xcc-8004.416.1at 402.113 kb on - strand, within Xcc-8004.416.1at 402.113 kb on - strand, within Xcc-8004.416.1at 402.160 kb on - strand, within Xcc-8004.416.1at 402.160 kb on - strand, within Xcc-8004.416.1at 402.191 kb on + strand, within Xcc-8004.416.1at 402.192 kb on - strand, within Xcc-8004.416.1at 402.205 kb on + strand, within Xcc-8004.416.1at 402.206 kb on - strand, within Xcc-8004.416.1at 402.217 kb on + strand, within Xcc-8004.416.1at 402.218 kb on - strand, within Xcc-8004.416.1at 402.218 kb on - strand, within Xcc-8004.416.1at 402.221 kb on + strand, within Xcc-8004.416.1at 402.478 kb on + strandat 402.488 kb on + strandat 402.489 kb on - strandat 402.522 kb on - strandat 402.579 kb on + strandat 402.579 kb on + strandat 402.594 kb on + strandat 402.744 kb on + strandat 402.842 kb on + strand, within Xcc-8004.417.1at 402.843 kb on - strand, within Xcc-8004.417.1at 402.845 kb on + strand, within Xcc-8004.417.1at 402.845 kb on + strand, within Xcc-8004.417.1at 402.846 kb on - strand, within Xcc-8004.417.1at 402.846 kb on - strand, within Xcc-8004.417.1at 403.013 kb on + strand, within Xcc-8004.417.1at 403.014 kb on - strand, within Xcc-8004.417.1at 403.110 kb on + strandat 403.221 kb on + strandat 403.221 kb on + strandat 403.251 kb on - strandat 403.258 kb on + strandat 403.259 kb on - strandat 403.259 kb on - strandat 403.260 kb on + strandat 403.260 kb on + strandat 403.261 kb on - strandat 403.373 kb on + strand, within Xcc-8004.418.1at 403.385 kb on + strand, within Xcc-8004.418.1at 403.386 kb on - strand, within Xcc-8004.418.1at 403.386 kb on - strand, within Xcc-8004.418.1at 403.386 kb on - strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.409 kb on + strand, within Xcc-8004.418.1at 403.410 kb on - strand, within Xcc-8004.418.1at 403.410 kb on - strand, within Xcc-8004.418.1at 403.410 kb on - strand, within Xcc-8004.418.1at 403.413 kb on + strand, within Xcc-8004.418.1at 403.413 kb on + strand, within Xcc-8004.418.1at 403.413 kb on + strand, within Xcc-8004.418.1at 403.414 kb on - strand, within Xcc-8004.418.1at 403.414 kb on - strand, within Xcc-8004.418.1at 403.414 kb on - strand, within Xcc-8004.418.1at 403.417 kb on + strand, within Xcc-8004.418.1at 403.418 kb on - strand, within Xcc-8004.418.1at 403.418 kb on - strand, within Xcc-8004.418.1at 403.462 kb on + strand, within Xcc-8004.418.1at 403.464 kb on + strand, within Xcc-8004.418.1at 403.465 kb on - strand, within Xcc-8004.418.1at 403.465 kb on - strand, within Xcc-8004.418.1at 403.465 kb on - strand, within Xcc-8004.418.1at 403.560 kb on + strand, within Xcc-8004.418.1at 403.582 kb on + strand, within Xcc-8004.418.1at 403.582 kb on + strand, within Xcc-8004.418.1at 403.608 kb on + strand, within Xcc-8004.418.1at 403.609 kb on - strand, within Xcc-8004.418.1at 403.720 kb on + strandat 403.720 kb on + strandat 403.721 kb on - strandat 403.724 kb on + strandat 403.725 kb on - strandat 403.725 kb on - strandat 403.728 kb on - strandat 403.728 kb on - strandat 403.728 kb on - strandat 403.734 kb on + strandat 403.735 kb on - strandat 403.735 kb on - strandat 403.735 kb on - strandat 403.742 kb on + strandat 403.804 kb on + strandat 403.805 kb on - strandat 403.829 kb on + strand, within Xcc-8004.419.1at 403.829 kb on + strand, within Xcc-8004.419.1at 403.911 kb on + strand, within Xcc-8004.419.1at 403.912 kb on - strand, within Xcc-8004.419.1at 403.912 kb on - strand, within Xcc-8004.419.1at 403.990 kb on - strand, within Xcc-8004.419.1at 404.071 kb on + strand, within Xcc-8004.419.1at 404.071 kb on + strand, within Xcc-8004.419.1at 404.071 kb on + strand, within Xcc-8004.419.1at 404.072 kb on - strand, within Xcc-8004.419.1at 404.095 kb on + strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1at 404.096 kb on - strand, within Xcc-8004.419.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Cauliflower; Treatment=None; Sample=Mesophyll; Collection=Direct; Time=3_days
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401,948 + -2.0
401,998 + +1.5
402,051 - -0.3
402,109 - Xcc-8004.416.1 0.13 +0.5
402,112 + Xcc-8004.416.1 0.14 +0.5
402,112 + Xcc-8004.416.1 0.14 -2.6
402,112 + Xcc-8004.416.1 0.14 +0.3
402,112 + Xcc-8004.416.1 0.14 +0.2
402,112 + Xcc-8004.416.1 0.14 -0.9
402,113 - Xcc-8004.416.1 0.14 +0.5
402,113 - Xcc-8004.416.1 0.14 -0.5
402,160 - Xcc-8004.416.1 0.24 -0.2
402,160 - Xcc-8004.416.1 0.24 +0.3
402,191 + Xcc-8004.416.1 0.31 +2.2
402,192 - Xcc-8004.416.1 0.31 +0.4
402,205 + Xcc-8004.416.1 0.34 -3.1
402,206 - Xcc-8004.416.1 0.34 -0.9
402,217 + Xcc-8004.416.1 0.37 -0.6
402,218 - Xcc-8004.416.1 0.37 +2.2
402,218 - Xcc-8004.416.1 0.37 +1.3
402,221 + Xcc-8004.416.1 0.37 +2.1
402,478 + -1.2
402,488 + -2.3
402,489 - +0.0
402,522 - -3.0
402,579 + -1.3
402,579 + -0.1
402,594 + -0.0
402,744 + +1.7
402,842 + Xcc-8004.417.1 0.29 -3.1
402,843 - Xcc-8004.417.1 0.29 +0.2
402,845 + Xcc-8004.417.1 0.30 +2.3
402,845 + Xcc-8004.417.1 0.30 +0.3
402,846 - Xcc-8004.417.1 0.30 +1.1
402,846 - Xcc-8004.417.1 0.30 +0.0
403,013 + Xcc-8004.417.1 0.71 -0.4
403,014 - Xcc-8004.417.1 0.72 +0.0
403,110 + +1.4
403,221 + -1.5
403,221 + +1.8
403,251 - +1.0
403,258 + +1.3
403,259 - +0.1
403,259 - -1.9
403,260 + -2.6
403,260 + -0.0
403,261 - +1.4
403,373 + Xcc-8004.418.1 0.24 -0.6
403,385 + Xcc-8004.418.1 0.26 -0.6
403,386 - Xcc-8004.418.1 0.27 -1.0
403,386 - Xcc-8004.418.1 0.27 -0.7
403,386 - Xcc-8004.418.1 0.27 -0.0
403,409 + Xcc-8004.418.1 0.32 -2.2
403,409 + Xcc-8004.418.1 0.32 -1.7
403,409 + Xcc-8004.418.1 0.32 -0.3
403,409 + Xcc-8004.418.1 0.32 +0.7
403,410 - Xcc-8004.418.1 0.32 -1.0
403,410 - Xcc-8004.418.1 0.32 +0.2
403,410 - Xcc-8004.418.1 0.32 -3.6
403,413 + Xcc-8004.418.1 0.32 +0.2
403,413 + Xcc-8004.418.1 0.32 +0.5
403,413 + Xcc-8004.418.1 0.32 +1.4
403,414 - Xcc-8004.418.1 0.33 -1.6
403,414 - Xcc-8004.418.1 0.33 -0.5
403,414 - Xcc-8004.418.1 0.33 -3.2
403,417 + Xcc-8004.418.1 0.33 -0.9
403,418 - Xcc-8004.418.1 0.34 -2.7
403,418 - Xcc-8004.418.1 0.34 +2.4
403,462 + Xcc-8004.418.1 0.43 -0.6
403,464 + Xcc-8004.418.1 0.44 -1.1
403,465 - Xcc-8004.418.1 0.44 -0.3
403,465 - Xcc-8004.418.1 0.44 -1.6
403,465 - Xcc-8004.418.1 0.44 -3.5
403,560 + Xcc-8004.418.1 0.65 +0.0
403,582 + Xcc-8004.418.1 0.70 -3.1
403,582 + Xcc-8004.418.1 0.70 -0.1
403,608 + Xcc-8004.418.1 0.75 -1.5
403,609 - Xcc-8004.418.1 0.75 +0.7
403,720 + -0.1
403,720 + -0.5
403,721 - -0.8
403,724 + -1.3
403,725 - -0.5
403,725 - -2.5
403,728 - +1.7
403,728 - -1.1
403,728 - -1.0
403,734 + -1.7
403,735 - -1.1
403,735 - +0.1
403,735 - +0.9
403,742 + +2.1
403,804 + -0.3
403,805 - +1.1
403,829 + Xcc-8004.419.1 0.13 -0.8
403,829 + Xcc-8004.419.1 0.13 -0.9
403,911 + Xcc-8004.419.1 0.23 -1.4
403,912 - Xcc-8004.419.1 0.23 -0.2
403,912 - Xcc-8004.419.1 0.23 +0.5
403,990 - Xcc-8004.419.1 0.32 +1.3
404,071 + Xcc-8004.419.1 0.42 -2.5
404,071 + Xcc-8004.419.1 0.42 -2.1
404,071 + Xcc-8004.419.1 0.42 +0.7
404,072 - Xcc-8004.419.1 0.42 +1.0
404,095 + Xcc-8004.419.1 0.45 -0.3
404,096 - Xcc-8004.419.1 0.45 -0.4
404,096 - Xcc-8004.419.1 0.45 +1.3
404,096 - Xcc-8004.419.1 0.45 -1.4
404,096 - Xcc-8004.419.1 0.45 -1.2
404,096 - Xcc-8004.419.1 0.45 -0.7
404,096 - Xcc-8004.419.1 0.45 -0.6

Or see this region's nucleotide sequence