Strain Fitness in Pseudomonas putida KT2440 around PP_3925

Experiment: 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO.

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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_3923 and PP_3924 are separated by 56 nucleotidesPP_3924 and PP_3925 are separated by 183 nucleotidesPP_3925 and PP_3926 are separated by 36 nucleotidesPP_3926 and PP_3927 are separated by 0 nucleotides PP_3923: PP_3923 - Phosphoglycerate mutase, at 4,428,963 to 4,429,673 _3923 PP_3924: PP_3924 - conserved protein of unknown function, at 4,429,730 to 4,430,047 _3924 PP_3925: PP_3925 - conserved protein of unknown function, at 4,430,231 to 4,431,298 _3925 PP_3926: PP_3926 - short-chain dehydrogenase, at 4,431,335 to 4,432,102 _3926 PP_3927: PP_3927 - Methyltransferase type 12, at 4,432,103 to 4,432,924 _3927 Position (kb) 4430 4431 4432Strain fitness (log2 ratio) -2 -1 0 1 2 3at 4429.411 kb on + strand, within PP_3923at 4429.411 kb on + strand, within PP_3923at 4429.412 kb on - strand, within PP_3923at 4429.466 kb on + strand, within PP_3923at 4429.466 kb on + strand, within PP_3923at 4429.467 kb on - strand, within PP_3923at 4429.467 kb on - strand, within PP_3923at 4429.467 kb on - strand, within PP_3923at 4429.467 kb on - strand, within PP_3923at 4429.467 kb on - strand, within PP_3923at 4429.467 kb on - strand, within PP_3923at 4429.517 kb on + strand, within PP_3923at 4429.518 kb on - strand, within PP_3923at 4429.518 kb on - strand, within PP_3923at 4429.521 kb on - strand, within PP_3923at 4429.665 kb on + strandat 4429.705 kb on + strandat 4429.706 kb on - strandat 4429.715 kb on + strandat 4429.715 kb on + strandat 4429.715 kb on + strandat 4429.716 kb on - strandat 4429.716 kb on - strandat 4429.716 kb on - strandat 4429.841 kb on + strand, within PP_3924at 4429.842 kb on - strand, within PP_3924at 4429.940 kb on - strand, within PP_3924at 4429.944 kb on + strand, within PP_3924at 4429.944 kb on + strand, within PP_3924at 4429.945 kb on - strand, within PP_3924at 4429.945 kb on - strand, within PP_3924at 4429.945 kb on - strand, within PP_3924at 4430.146 kb on + strandat 4430.146 kb on + strandat 4430.147 kb on - strandat 4430.147 kb on - strandat 4430.147 kb on - strandat 4430.147 kb on - strandat 4430.147 kb on - strandat 4430.189 kb on - strandat 4430.189 kb on - strandat 4430.193 kb on + strandat 4430.200 kb on + strandat 4430.300 kb on + strandat 4430.301 kb on - strandat 4430.379 kb on - strand, within PP_3925at 4430.379 kb on - strand, within PP_3925at 4430.391 kb on - strand, within PP_3925at 4430.561 kb on + strand, within PP_3925at 4430.561 kb on + strand, within PP_3925at 4430.561 kb on + strand, within PP_3925at 4430.561 kb on + strand, within PP_3925at 4430.562 kb on - strand, within PP_3925at 4430.693 kb on + strand, within PP_3925at 4430.693 kb on + strand, within PP_3925at 4430.694 kb on - strand, within PP_3925at 4430.735 kb on + strand, within PP_3925at 4430.735 kb on + strand, within PP_3925at 4430.735 kb on + strand, within PP_3925at 4430.736 kb on - strand, within PP_3925at 4430.736 kb on - strand, within PP_3925at 4430.996 kb on + strand, within PP_3925at 4430.996 kb on + strand, within PP_3925at 4430.997 kb on - strand, within PP_3925at 4431.092 kb on + strand, within PP_3925at 4431.092 kb on + strand, within PP_3925at 4431.093 kb on - strand, within PP_3925at 4431.134 kb on + strand, within PP_3925at 4431.134 kb on + strand, within PP_3925at 4431.137 kb on + strand, within PP_3925at 4431.137 kb on + strand, within PP_3925at 4431.137 kb on + strand, within PP_3925at 4431.137 kb on + strand, within PP_3925at 4431.137 kb on + strand, within PP_3925at 4431.137 kb on + strandat 4431.137 kb on + strand, within PP_3925at 4431.138 kb on - strand, within PP_3925at 4431.138 kb on - strand, within PP_3925at 4431.140 kb on + strand, within PP_3925at 4431.140 kb on + strand, within PP_3925at 4431.140 kb on + strand, within PP_3925at 4431.140 kb on + strand, within PP_3925at 4431.140 kb on + strand, within PP_3925at 4431.140 kb on + strand, within PP_3925at 4431.141 kb on - strand, within PP_3925at 4431.141 kb on - strand, within PP_3925at 4431.141 kb on - strand, within PP_3925at 4431.141 kb on - strand, within PP_3925at 4431.141 kb on - strand, within PP_3925at 4431.141 kb on - strand, within PP_3925at 4431.146 kb on + strand, within PP_3925at 4431.147 kb on - strand, within PP_3925at 4431.147 kb on - strand, within PP_3925at 4431.185 kb on + strand, within PP_3925at 4431.186 kb on - strand, within PP_3925at 4431.186 kb on - strand, within PP_3925at 4431.186 kb on - strand, within PP_3925at 4431.194 kb on + strandat 4431.194 kb on + strandat 4431.194 kb on + strandat 4431.197 kb on + strandat 4431.197 kb on + strandat 4431.197 kb on + strandat 4431.198 kb on - strandat 4431.198 kb on - strandat 4431.704 kb on + strand, within PP_3926at 4431.816 kb on - strand, within PP_3926at 4431.920 kb on - strandat 4432.031 kb on + strandat 4432.055 kb on + strandat 4432.055 kb on + strandat 4432.055 kb on + strandat 4432.056 kb on - strandat 4432.128 kb on + strandat 4432.128 kb on + strandat 4432.128 kb on + strandat 4432.129 kb on - strandat 4432.167 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction 48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO.
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4,429,411 + PP_3923 0.63 +0.8
4,429,411 + PP_3923 0.63 +0.9
4,429,412 - PP_3923 0.63 +0.7
4,429,466 + PP_3923 0.71 +0.3
4,429,466 + PP_3923 0.71 -0.2
4,429,467 - PP_3923 0.71 -1.4
4,429,467 - PP_3923 0.71 -0.0
4,429,467 - PP_3923 0.71 -1.2
4,429,467 - PP_3923 0.71 +0.3
4,429,467 - PP_3923 0.71 +0.9
4,429,467 - PP_3923 0.71 +0.1
4,429,517 + PP_3923 0.78 +2.4
4,429,518 - PP_3923 0.78 -1.0
4,429,518 - PP_3923 0.78 +0.7
4,429,521 - PP_3923 0.78 -1.3
4,429,665 + +0.1
4,429,705 + -0.3
4,429,706 - -0.6
4,429,715 + +0.6
4,429,715 + -0.1
4,429,715 + -0.0
4,429,716 - -1.8
4,429,716 - -0.7
4,429,716 - -0.1
4,429,841 + PP_3924 0.35 -1.3
4,429,842 - PP_3924 0.35 -0.6
4,429,940 - PP_3924 0.66 -1.0
4,429,944 + PP_3924 0.67 -1.0
4,429,944 + PP_3924 0.67 +1.0
4,429,945 - PP_3924 0.68 +0.2
4,429,945 - PP_3924 0.68 +0.6
4,429,945 - PP_3924 0.68 -0.4
4,430,146 + +0.4
4,430,146 + -0.3
4,430,147 - -0.6
4,430,147 - -1.0
4,430,147 - -0.0
4,430,147 - +0.3
4,430,147 - +0.9
4,430,189 - -0.3
4,430,189 - +0.0
4,430,193 + -0.0
4,430,200 + +0.4
4,430,300 + +1.4
4,430,301 - -0.4
4,430,379 - PP_3925 0.14 -1.1
4,430,379 - PP_3925 0.14 -0.7
4,430,391 - PP_3925 0.15 -0.5
4,430,561 + PP_3925 0.31 -0.5
4,430,561 + PP_3925 0.31 -0.1
4,430,561 + PP_3925 0.31 +0.0
4,430,561 + PP_3925 0.31 +0.3
4,430,562 - PP_3925 0.31 +0.0
4,430,693 + PP_3925 0.43 -0.7
4,430,693 + PP_3925 0.43 -1.1
4,430,694 - PP_3925 0.43 +0.0
4,430,735 + PP_3925 0.47 +0.1
4,430,735 + PP_3925 0.47 +0.6
4,430,735 + PP_3925 0.47 -0.9
4,430,736 - PP_3925 0.47 -1.1
4,430,736 - PP_3925 0.47 -1.6
4,430,996 + PP_3925 0.72 -1.4
4,430,996 + PP_3925 0.72 -1.0
4,430,997 - PP_3925 0.72 -0.8
4,431,092 + PP_3925 0.81 -0.1
4,431,092 + PP_3925 0.81 -0.7
4,431,093 - PP_3925 0.81 +0.2
4,431,134 + PP_3925 0.85 +0.1
4,431,134 + PP_3925 0.85 -0.4
4,431,137 + PP_3925 0.85 +0.2
4,431,137 + PP_3925 0.85 +1.0
4,431,137 + PP_3925 0.85 +0.7
4,431,137 + PP_3925 0.85 +0.1
4,431,137 + PP_3925 0.85 -0.6
4,431,137 + +0.9
4,431,137 + PP_3925 0.85 -1.8
4,431,138 - PP_3925 0.85 +0.3
4,431,138 - PP_3925 0.85 +0.0
4,431,140 + PP_3925 0.85 -0.3
4,431,140 + PP_3925 0.85 -0.1
4,431,140 + PP_3925 0.85 -0.1
4,431,140 + PP_3925 0.85 +0.2
4,431,140 + PP_3925 0.85 -0.1
4,431,140 + PP_3925 0.85 +0.9
4,431,141 - PP_3925 0.85 +0.1
4,431,141 - PP_3925 0.85 -0.1
4,431,141 - PP_3925 0.85 +0.0
4,431,141 - PP_3925 0.85 -0.5
4,431,141 - PP_3925 0.85 +0.1
4,431,141 - PP_3925 0.85 -0.4
4,431,146 + PP_3925 0.86 -1.8
4,431,147 - PP_3925 0.86 +0.0
4,431,147 - PP_3925 0.86 -0.6
4,431,185 + PP_3925 0.89 -0.4
4,431,186 - PP_3925 0.89 -0.2
4,431,186 - PP_3925 0.89 -1.0
4,431,186 - PP_3925 0.89 -0.2
4,431,194 + +0.7
4,431,194 + +0.0
4,431,194 + -0.1
4,431,197 + -0.5
4,431,197 + -0.3
4,431,197 + -0.3
4,431,198 - +0.5
4,431,198 - +0.5
4,431,704 + PP_3926 0.48 +0.1
4,431,816 - PP_3926 0.63 -0.5
4,431,920 - +2.9
4,432,031 + -0.7
4,432,055 + -0.8
4,432,055 + -1.7
4,432,055 + -1.7
4,432,056 - -1.1
4,432,128 + -0.5
4,432,128 + -0.2
4,432,128 + +0.9
4,432,129 - -0.8
4,432,167 + +0.4

Or see this region's nucleotide sequence