Strain Fitness in Pseudomonas putida KT2440 around PP_0049

Experiment: BC Lignin Sorghum 10 vol% (C)

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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 ntPP_0048 and PP_5423 are separated by 101 nucleotidesPP_5423 and PP_0049 are separated by 189 nucleotidesPP_0049 and PP_5424 are separated by 12 nucleotides PP_0048: PP_0048 - conserved protein of unknown function, at 55,019 to 55,342 _0048 PP_5423: PP_5423 - conserved membrane protein of unknown function, at 55,444 to 55,971 _5423 PP_0049: PP_0049 - conserved protein of unknown function, at 56,161 to 57,627 _0049 PP_5424: PP_5424 - conserved protein of unknown function, at 57,640 to 58,089 _5424 Position (kb) 56 57 58Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 55.214 kb on + strand, within PP_0048at 55.377 kb on - strandat 55.465 kb on - strandat 55.537 kb on + strand, within PP_5423at 55.867 kb on - strand, within PP_5423at 55.877 kb on - strand, within PP_5423at 55.981 kb on + strandat 55.981 kb on + strandat 55.982 kb on - strandat 55.993 kb on + strandat 56.007 kb on - strandat 56.126 kb on - strandat 56.126 kb on - strandat 56.214 kb on + strandat 56.251 kb on + strandat 56.251 kb on + strandat 56.258 kb on - strandat 56.293 kb on + strandat 56.320 kb on + strand, within PP_0049at 56.331 kb on + strand, within PP_0049at 56.344 kb on + strand, within PP_0049at 56.344 kb on + strand, within PP_0049at 56.345 kb on - strand, within PP_0049at 56.345 kb on - strand, within PP_0049at 56.345 kb on - strand, within PP_0049at 56.345 kb on - strand, within PP_0049at 56.352 kb on + strand, within PP_0049at 56.365 kb on + strand, within PP_0049at 56.394 kb on - strand, within PP_0049at 56.399 kb on + strand, within PP_0049at 56.421 kb on - strand, within PP_0049at 56.434 kb on + strand, within PP_0049at 56.435 kb on - strand, within PP_0049at 56.504 kb on + strand, within PP_0049at 56.504 kb on + strand, within PP_0049at 56.504 kb on + strand, within PP_0049at 56.504 kb on + strand, within PP_0049at 56.505 kb on - strand, within PP_0049at 56.505 kb on - strand, within PP_0049at 56.518 kb on + strand, within PP_0049at 56.519 kb on - strand, within PP_0049at 56.612 kb on - strand, within PP_0049at 56.616 kb on + strand, within PP_0049at 56.616 kb on + strand, within PP_0049at 56.617 kb on - strand, within PP_0049at 56.617 kb on - strand, within PP_0049at 56.617 kb on - strand, within PP_0049at 56.620 kb on + strandat 56.620 kb on + strand, within PP_0049at 56.621 kb on - strand, within PP_0049at 56.641 kb on + strand, within PP_0049at 56.668 kb on + strand, within PP_0049at 56.668 kb on + strand, within PP_0049at 56.669 kb on - strand, within PP_0049at 56.669 kb on - strand, within PP_0049at 56.714 kb on + strand, within PP_0049at 56.714 kb on + strand, within PP_0049at 56.714 kb on + strand, within PP_0049at 56.714 kb on + strand, within PP_0049at 56.714 kb on + strand, within PP_0049at 56.720 kb on + strand, within PP_0049at 56.720 kb on + strand, within PP_0049at 56.720 kb on + strand, within PP_0049at 56.720 kb on + strand, within PP_0049at 56.721 kb on - strand, within PP_0049at 56.796 kb on + strand, within PP_0049at 56.796 kb on + strand, within PP_0049at 56.822 kb on + strand, within PP_0049at 56.991 kb on + strand, within PP_0049at 56.992 kb on - strand, within PP_0049at 56.992 kb on - strand, within PP_0049at 56.992 kb on - strand, within PP_0049at 57.021 kb on + strand, within PP_0049at 57.022 kb on - strand, within PP_0049at 57.064 kb on + strand, within PP_0049at 57.064 kb on + strand, within PP_0049at 57.064 kb on + strand, within PP_0049at 57.065 kb on - strand, within PP_0049at 57.065 kb on - strand, within PP_0049at 57.065 kb on - strand, within PP_0049at 57.065 kb on - strand, within PP_0049at 57.065 kb on - strand, within PP_0049at 57.149 kb on + strand, within PP_0049at 57.150 kb on - strand, within PP_0049at 57.150 kb on - strand, within PP_0049at 57.150 kb on - strand, within PP_0049at 57.150 kb on - strand, within PP_0049at 57.150 kb on - strand, within PP_0049at 57.178 kb on - strand, within PP_0049at 57.197 kb on - strand, within PP_0049at 57.229 kb on - strand, within PP_0049at 57.294 kb on + strand, within PP_0049at 57.294 kb on + strand, within PP_0049at 57.296 kb on + strand, within PP_0049at 57.297 kb on - strand, within PP_0049at 57.297 kb on - strand, within PP_0049at 57.423 kb on + strand, within PP_0049at 57.463 kb on - strand, within PP_0049at 57.527 kb on - strandat 57.637 kb on + strandat 57.637 kb on + strandat 57.637 kb on + strandat 57.637 kb on + strandat 57.638 kb on - strandat 57.638 kb on - strandat 57.641 kb on + strandat 57.641 kb on + strandat 57.641 kb on + strandat 57.642 kb on - strandat 57.782 kb on + strand, within PP_5424at 57.783 kb on - strand, within PP_5424at 57.783 kb on - strand, within PP_5424at 57.917 kb on + strand, within PP_5424at 57.917 kb on + strand, within PP_5424at 57.918 kb on - strand, within PP_5424at 57.918 kb on - strand, within PP_5424at 57.961 kb on + strand, within PP_5424at 57.961 kb on + strand, within PP_5424at 57.961 kb on + strand, within PP_5424at 57.962 kb on - strand, within PP_5424at 57.962 kb on - strand, within PP_5424at 57.962 kb on - strand, within PP_5424at 57.962 kb on - strand, within PP_5424at 57.969 kb on + strand, within PP_5424at 57.969 kb on + strand, within PP_5424at 57.969 kb on + strand, within PP_5424at 57.969 kb on + strand, within PP_5424at 57.970 kb on - strand, within PP_5424at 57.970 kb on - strand, within PP_5424at 57.970 kb on - strand, within PP_5424at 57.970 kb on - strand, within PP_5424at 57.970 kb on - strand, within PP_5424at 57.973 kb on + strand, within PP_5424at 57.973 kb on + strand, within PP_5424at 57.973 kb on + strand, within PP_5424at 57.973 kb on + strand, within PP_5424at 58.016 kb on - strand, within PP_5424at 58.016 kb on - strand, within PP_5424at 58.082 kb on + strandat 58.082 kb on + strandat 58.082 kb on + strandat 58.082 kb on + strandat 58.082 kb on + strandat 58.082 kb on + strandat 58.083 kb on - strandat 58.083 kb on - strandat 58.083 kb on - strandat 58.083 kb on - strandat 58.083 kb on - strandat 58.083 kb on - strandat 58.164 kb on + strandat 58.164 kb on + strandat 58.165 kb on - strandat 58.168 kb on + strandat 58.169 kb on - strandat 58.192 kb on + strandat 58.192 kb on + strandat 58.192 kb on + strandat 58.253 kb on - strandat 58.266 kb on - strandat 58.451 kb on + strandat 58.451 kb on + strandat 58.452 kb on - strandat 58.501 kb on + strandat 58.501 kb on + strandat 58.502 kb on - strandat 58.502 kb on - strandat 58.502 kb on - strandat 58.508 kb on + strandat 58.508 kb on + strandat 58.508 kb on + strandat 58.508 kb on + strandat 58.509 kb on - strandat 58.509 kb on - strandat 58.509 kb on - strandat 58.526 kb on - strandat 58.607 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction BC Lignin Sorghum 10 vol% (C)
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55,214 + PP_0048 0.60 -2.4
55,377 - +0.0
55,465 - -1.1
55,537 + PP_5423 0.18 +0.8
55,867 - PP_5423 0.80 -0.7
55,877 - PP_5423 0.82 +0.2
55,981 + -3.0
55,981 + -0.8
55,982 - +0.1
55,993 + +0.2
56,007 - +0.6
56,126 - -0.2
56,126 - -0.5
56,214 + -2.1
56,251 + +0.8
56,251 + +0.0
56,258 - -0.9
56,293 + +2.2
56,320 + PP_0049 0.11 -0.0
56,331 + PP_0049 0.12 -0.8
56,344 + PP_0049 0.12 -0.6
56,344 + PP_0049 0.12 +0.4
56,345 - PP_0049 0.13 -1.6
56,345 - PP_0049 0.13 +0.9
56,345 - PP_0049 0.13 +0.1
56,345 - PP_0049 0.13 +1.3
56,352 + PP_0049 0.13 +0.5
56,365 + PP_0049 0.14 -1.1
56,394 - PP_0049 0.16 +0.3
56,399 + PP_0049 0.16 +0.4
56,421 - PP_0049 0.18 +1.0
56,434 + PP_0049 0.19 -1.3
56,435 - PP_0049 0.19 +0.2
56,504 + PP_0049 0.23 -1.0
56,504 + PP_0049 0.23 -0.1
56,504 + PP_0049 0.23 -0.9
56,504 + PP_0049 0.23 -0.3
56,505 - PP_0049 0.23 +0.2
56,505 - PP_0049 0.23 +0.8
56,518 + PP_0049 0.24 +0.1
56,519 - PP_0049 0.24 -1.5
56,612 - PP_0049 0.31 -0.9
56,616 + PP_0049 0.31 -0.6
56,616 + PP_0049 0.31 -2.9
56,617 - PP_0049 0.31 -1.1
56,617 - PP_0049 0.31 +0.5
56,617 - PP_0049 0.31 -2.2
56,620 + -0.0
56,620 + PP_0049 0.31 -1.0
56,621 - PP_0049 0.31 +0.6
56,641 + PP_0049 0.33 -0.6
56,668 + PP_0049 0.35 -0.7
56,668 + PP_0049 0.35 +0.2
56,669 - PP_0049 0.35 +0.7
56,669 - PP_0049 0.35 -0.4
56,714 + PP_0049 0.38 -1.7
56,714 + PP_0049 0.38 -0.5
56,714 + PP_0049 0.38 -0.1
56,714 + PP_0049 0.38 -0.2
56,714 + PP_0049 0.38 +0.1
56,720 + PP_0049 0.38 -2.2
56,720 + PP_0049 0.38 -0.5
56,720 + PP_0049 0.38 -0.4
56,720 + PP_0049 0.38 -1.2
56,721 - PP_0049 0.38 +0.2
56,796 + PP_0049 0.43 -1.0
56,796 + PP_0049 0.43 -1.0
56,822 + PP_0049 0.45 -2.6
56,991 + PP_0049 0.57 -0.5
56,992 - PP_0049 0.57 -1.1
56,992 - PP_0049 0.57 -0.3
56,992 - PP_0049 0.57 -1.3
57,021 + PP_0049 0.59 +0.6
57,022 - PP_0049 0.59 -0.9
57,064 + PP_0049 0.62 -0.3
57,064 + PP_0049 0.62 -0.4
57,064 + PP_0049 0.62 +0.6
57,065 - PP_0049 0.62 -0.5
57,065 - PP_0049 0.62 -0.8
57,065 - PP_0049 0.62 -0.6
57,065 - PP_0049 0.62 -0.6
57,065 - PP_0049 0.62 +0.5
57,149 + PP_0049 0.67 +0.9
57,150 - PP_0049 0.67 -2.3
57,150 - PP_0049 0.67 -0.2
57,150 - PP_0049 0.67 -0.0
57,150 - PP_0049 0.67 +1.4
57,150 - PP_0049 0.67 +0.6
57,178 - PP_0049 0.69 +0.3
57,197 - PP_0049 0.71 +0.5
57,229 - PP_0049 0.73 -1.0
57,294 + PP_0049 0.77 +0.4
57,294 + PP_0049 0.77 -1.2
57,296 + PP_0049 0.77 +0.1
57,297 - PP_0049 0.77 -2.3
57,297 - PP_0049 0.77 -0.4
57,423 + PP_0049 0.86 -0.1
57,463 - PP_0049 0.89 -0.3
57,527 - +0.2
57,637 + -0.2
57,637 + +0.1
57,637 + -1.0
57,637 + -1.3
57,638 - -0.5
57,638 - -1.5
57,641 + -1.3
57,641 + -0.3
57,641 + -0.4
57,642 - -0.6
57,782 + PP_5424 0.32 +0.1
57,783 - PP_5424 0.32 -2.8
57,783 - PP_5424 0.32 +0.3
57,917 + PP_5424 0.62 +0.9
57,917 + PP_5424 0.62 -1.4
57,918 - PP_5424 0.62 +1.0
57,918 - PP_5424 0.62 +0.1
57,961 + PP_5424 0.71 +0.5
57,961 + PP_5424 0.71 -1.7
57,961 + PP_5424 0.71 -2.4
57,962 - PP_5424 0.72 -1.7
57,962 - PP_5424 0.72 +0.7
57,962 - PP_5424 0.72 -0.6
57,962 - PP_5424 0.72 -1.4
57,969 + PP_5424 0.73 -1.3
57,969 + PP_5424 0.73 +0.7
57,969 + PP_5424 0.73 -0.7
57,969 + PP_5424 0.73 +1.6
57,970 - PP_5424 0.73 +0.8
57,970 - PP_5424 0.73 +0.6
57,970 - PP_5424 0.73 -0.4
57,970 - PP_5424 0.73 +0.0
57,970 - PP_5424 0.73 +0.7
57,973 + PP_5424 0.74 -1.8
57,973 + PP_5424 0.74 +0.1
57,973 + PP_5424 0.74 +0.8
57,973 + PP_5424 0.74 -0.3
58,016 - PP_5424 0.84 -0.3
58,016 - PP_5424 0.84 -0.0
58,082 + +2.3
58,082 + +0.2
58,082 + -0.5
58,082 + -0.1
58,082 + -0.2
58,082 + +0.5
58,083 - +0.3
58,083 - -3.4
58,083 - -0.8
58,083 - +0.1
58,083 - +0.3
58,083 - +0.1
58,164 + -0.2
58,164 + +0.3
58,165 - -0.4
58,168 + -0.0
58,169 - +0.5
58,192 + +0.5
58,192 + -0.6
58,192 + +3.6
58,253 - +0.0
58,266 - -1.0
58,451 + -0.0
58,451 + -1.0
58,452 - +1.0
58,501 + -1.7
58,501 + -0.4
58,502 - +0.7
58,502 - +0.1
58,502 - +0.1
58,508 + -0.5
58,508 + +0.4
58,508 + +0.2
58,508 + -1.4
58,509 - -0.8
58,509 - -1.2
58,509 - +0.4
58,526 - +0.6
58,607 - +0.7

Or see this region's nucleotide sequence