Strain Fitness in Xanthomonas campestris pv. campestris strain 8004 around Xcc-8004.416.1

Experiment: Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant

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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 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 Position (kb) 402 403Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 401.105 kb on - strandat 401.105 kb on - strandat 401.146 kb on + strandat 401.147 kb on - strandat 401.157 kb on - strandat 401.178 kb on + strandat 401.209 kb on + strandat 401.209 kb on + strandat 401.238 kb on + strandat 401.238 kb on + strandat 401.238 kb on + strandat 401.239 kb on - strandat 401.239 kb on - strandat 401.239 kb on - strandat 401.248 kb on - strandat 401.251 kb on - strandat 401.293 kb on - strand, within Xcc-8004.415.1at 401.329 kb on + strand, within Xcc-8004.415.1at 401.330 kb on - strand, within Xcc-8004.415.1at 401.338 kb on - strand, within Xcc-8004.415.1at 401.454 kb on + strand, within Xcc-8004.415.1at 401.454 kb on + strand, within Xcc-8004.415.1at 401.455 kb on - strand, within Xcc-8004.415.1at 401.455 kb on - strand, within Xcc-8004.415.1at 401.479 kb on - strand, within Xcc-8004.415.1at 401.576 kb on + strand, within Xcc-8004.415.1at 401.629 kb on + strand, within Xcc-8004.415.1at 401.630 kb on - strand, within Xcc-8004.415.1at 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-8004.418.1

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Per-strain Table

Position Strand Gene LocusTag Fraction Parafilmed volatile agar plate with Trichoderma atroviridae IMI ago3mutant
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401,105 - -0.2
401,105 - -1.6
401,146 + -2.0
401,147 - -1.1
401,157 - -0.2
401,178 + +0.0
401,209 + -1.0
401,209 + +1.9
401,238 + +0.1
401,238 + -1.4
401,238 + -0.9
401,239 - -0.9
401,239 - -0.3
401,239 - -0.5
401,248 - -0.2
401,251 - +1.2
401,293 - Xcc-8004.415.1 0.13 +0.3
401,329 + Xcc-8004.415.1 0.17 +0.9
401,330 - Xcc-8004.415.1 0.17 +0.1
401,338 - Xcc-8004.415.1 0.18 -1.1
401,454 + Xcc-8004.415.1 0.33 -0.3
401,454 + Xcc-8004.415.1 0.33 +0.1
401,455 - Xcc-8004.415.1 0.33 +0.0
401,455 - Xcc-8004.415.1 0.33 -1.7
401,479 - Xcc-8004.415.1 0.36 -0.5
401,576 + Xcc-8004.415.1 0.48 -0.9
401,629 + Xcc-8004.415.1 0.55 +0.7
401,630 - Xcc-8004.415.1 0.55 +0.0
401,948 + -0.2
401,998 + -1.0
402,051 - -0.6
402,109 - Xcc-8004.416.1 0.13 -0.4
402,112 + Xcc-8004.416.1 0.14 +0.4
402,112 + Xcc-8004.416.1 0.14 +1.1
402,112 + Xcc-8004.416.1 0.14 +1.7
402,112 + Xcc-8004.416.1 0.14 -0.5
402,112 + Xcc-8004.416.1 0.14 +0.2
402,113 - Xcc-8004.416.1 0.14 +1.4
402,113 - Xcc-8004.416.1 0.14 -1.8
402,160 - Xcc-8004.416.1 0.24 -1.1
402,160 - Xcc-8004.416.1 0.24 -1.1
402,191 + Xcc-8004.416.1 0.31 +1.5
402,192 - Xcc-8004.416.1 0.31 +0.5
402,205 + Xcc-8004.416.1 0.34 +0.1
402,206 - Xcc-8004.416.1 0.34 +0.3
402,217 + Xcc-8004.416.1 0.37 -0.5
402,218 - Xcc-8004.416.1 0.37 -1.2
402,218 - Xcc-8004.416.1 0.37 -1.0
402,221 + Xcc-8004.416.1 0.37 +0.1
402,478 + +0.3
402,488 + +1.0
402,489 - +0.5
402,522 - -0.2
402,579 + -0.7
402,579 + +0.2
402,594 + +0.5
402,744 + +1.1
402,842 + Xcc-8004.417.1 0.29 -1.2
402,843 - Xcc-8004.417.1 0.29 +0.5
402,845 + Xcc-8004.417.1 0.30 -1.0
402,845 + Xcc-8004.417.1 0.30 -0.7
402,846 - Xcc-8004.417.1 0.30 -1.4
402,846 - Xcc-8004.417.1 0.30 -2.0
403,013 + Xcc-8004.417.1 0.71 -0.3
403,014 - Xcc-8004.417.1 0.72 -0.7
403,110 + -0.5
403,221 + -0.7
403,221 + -0.3
403,251 - +1.0
403,258 + -0.7
403,259 - +0.2
403,259 - -0.4
403,260 + -0.9
403,260 + -0.1
403,261 - -1.9
403,373 + Xcc-8004.418.1 0.24 -1.1
403,385 + Xcc-8004.418.1 0.26 +0.0
403,386 - Xcc-8004.418.1 0.27 -0.7
403,386 - Xcc-8004.418.1 0.27 +1.2
403,386 - Xcc-8004.418.1 0.27 -0.0
403,409 + Xcc-8004.418.1 0.32 -1.4
403,409 + Xcc-8004.418.1 0.32 -1.6
403,409 + Xcc-8004.418.1 0.32 -1.0
403,409 + Xcc-8004.418.1 0.32 -0.5
403,410 - Xcc-8004.418.1 0.32 -2.7
403,410 - Xcc-8004.418.1 0.32 +1.3
403,410 - Xcc-8004.418.1 0.32 -0.0
403,413 + Xcc-8004.418.1 0.32 -0.0
403,413 + Xcc-8004.418.1 0.32 +0.6
403,413 + Xcc-8004.418.1 0.32 -2.9
403,414 - Xcc-8004.418.1 0.33 -0.9
403,414 - Xcc-8004.418.1 0.33 -0.6
403,414 - Xcc-8004.418.1 0.33 +0.4
403,417 + Xcc-8004.418.1 0.33 +1.0
403,418 - Xcc-8004.418.1 0.34 -0.4
403,418 - Xcc-8004.418.1 0.34 +0.8
403,462 + Xcc-8004.418.1 0.43 -0.3
403,464 + Xcc-8004.418.1 0.44 -0.3
403,465 - Xcc-8004.418.1 0.44 +1.5
403,465 - Xcc-8004.418.1 0.44 -3.5
403,465 - Xcc-8004.418.1 0.44 -0.9

Or see this region's nucleotide sequence