Strain Fitness in Pseudomonas putida KT2440 around PP_2974

Experiment: Growth at pH8 and (C) Trisodium citrate

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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_2971 and PP_2972 overlap by 165 nucleotidesPP_2972 and PP_2973 are separated by 38 nucleotidesPP_2973 and PP_2974 are separated by 34 nucleotidesPP_2974 and PP_2975 are separated by 65 nucleotidesPP_2975 and PP_2976 are separated by 147 nucleotidesPP_2976 and PP_2977 overlap by 4 nucleotides PP_2971: PP_2971 - transposase, at 3,372,842 to 3,373,879 _2971 PP_2972: PP_2972 - conserved protein of unknown function, at 3,373,715 to 3,374,014 _2972 PP_2973: PP_2973 - diacylglycerol kinase, at 3,374,053 to 3,374,406 _2973 PP_2974: PP_2974 - putative sulfatase, at 3,374,441 to 3,376,093 _2974 PP_2975: PP_2975 - Insertion element ISR1 uncharacterized 10 kDa protein A3, at 3,376,159 to 3,376,425 _2975 PP_2976: PP_2976 - putative transposase, at 3,376,573 to 3,376,884 _2976 PP_2977: PP_2977 - Tn4652, transposase subunit B, at 3,376,881 to 3,377,786 _2977 Position (kb) 3374 3375 3376 3377Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 3373.602 kb on + strand, within PP_2971at 3373.602 kb on + strand, within PP_2971at 3373.627 kb on - strand, within PP_2971at 3373.653 kb on + strand, within PP_2971at 3373.653 kb on + strand, within PP_2971at 3373.654 kb on - strand, within PP_2971at 3373.654 kb on - strand, within PP_2971at 3373.654 kb on - strand, within PP_2971at 3373.779 kb on + strandat 3373.779 kb on + strandat 3373.780 kb on - strandat 3373.780 kb on - strandat 3373.970 kb on + strand, within PP_2972at 3373.970 kb on + strand, within PP_2972at 3373.971 kb on - strand, within PP_2972at 3374.082 kb on + strandat 3374.083 kb on - strandat 3374.083 kb on - strandat 3374.094 kb on + strand, within PP_2973at 3374.094 kb on + strand, within PP_2973at 3374.094 kb on + strand, within PP_2973at 3374.095 kb on - strand, within PP_2973at 3374.095 kb on - strand, within PP_2973at 3374.095 kb on - strandat 3374.095 kb on - strand, within PP_2973at 3374.098 kb on + strand, within PP_2973at 3374.099 kb on - strand, within PP_2973at 3374.099 kb on - strand, within PP_2973at 3374.160 kb on - strand, within PP_2973at 3374.162 kb on + strand, within PP_2973at 3374.228 kb on + strand, within PP_2973at 3374.228 kb on + strand, within PP_2973at 3374.262 kb on - strand, within PP_2973at 3374.277 kb on - strand, within PP_2973at 3374.322 kb on + strand, within PP_2973at 3374.322 kb on + strand, within PP_2973at 3374.382 kb on + strandat 3374.383 kb on - strandat 3374.383 kb on - strandat 3374.404 kb on + strandat 3374.418 kb on + strandat 3374.418 kb on + strandat 3374.440 kb on + strandat 3374.500 kb on + strandat 3374.541 kb on + strandat 3374.542 kb on - strandat 3374.574 kb on + strandat 3374.574 kb on + strandat 3374.664 kb on + strand, within PP_2974at 3374.672 kb on + strand, within PP_2974at 3374.674 kb on + strand, within PP_2974at 3374.675 kb on - strand, within PP_2974at 3374.675 kb on - strand, within PP_2974at 3374.766 kb on + strand, within PP_2974at 3374.766 kb on + strand, within PP_2974at 3374.767 kb on - strand, within PP_2974at 3374.767 kb on - strand, within PP_2974at 3374.771 kb on - strand, within PP_2974at 3374.965 kb on + strand, within PP_2974at 3374.967 kb on + strand, within PP_2974at 3374.967 kb on + strand, within PP_2974at 3374.967 kb on + strand, within PP_2974at 3374.968 kb on - strand, within PP_2974at 3374.968 kb on - strand, within PP_2974at 3374.968 kb on - strand, within PP_2974at 3375.035 kb on - strand, within PP_2974at 3375.035 kb on - strand, within PP_2974at 3375.035 kb on - strand, within PP_2974at 3375.058 kb on + strand, within PP_2974at 3375.082 kb on + strand, within PP_2974at 3375.106 kb on - strand, within PP_2974at 3375.124 kb on + strand, within PP_2974at 3375.124 kb on + strand, within PP_2974at 3375.124 kb on + strand, within PP_2974at 3375.153 kb on + strand, within PP_2974at 3375.180 kb on - strand, within PP_2974at 3375.200 kb on + strand, within PP_2974at 3375.279 kb on + strand, within PP_2974at 3375.279 kb on + strand, within PP_2974at 3375.279 kb on + strand, within PP_2974at 3375.280 kb on - strand, within PP_2974at 3375.569 kb on + strand, within PP_2974at 3375.625 kb on + strand, within PP_2974at 3375.625 kb on + strand, within PP_2974at 3375.625 kb on + strand, within PP_2974at 3375.650 kb on + strand, within PP_2974at 3375.650 kb on + strand, within PP_2974at 3375.650 kb on + strand, within PP_2974at 3375.651 kb on - strand, within PP_2974at 3375.651 kb on - strand, within PP_2974at 3375.656 kb on + strand, within PP_2974at 3375.731 kb on - strand, within PP_2974at 3375.753 kb on + strand, within PP_2974at 3375.754 kb on - strand, within PP_2974at 3375.787 kb on + strand, within PP_2974at 3375.787 kb on + strand, within PP_2974at 3375.842 kb on + strand, within PP_2974at 3375.842 kb on + strand, within PP_2974at 3375.842 kb on + strand, within PP_2974at 3375.843 kb on - strand, within PP_2974at 3375.843 kb on - strand, within PP_2974at 3375.843 kb on - strand, within PP_2974at 3375.949 kb on + strandat 3375.949 kb on + strandat 3375.950 kb on - strandat 3375.998 kb on - strandat 3376.007 kb on + strandat 3376.008 kb on - strandat 3376.023 kb on + strandat 3376.023 kb on + strandat 3376.069 kb on - strandat 3376.092 kb on - strandat 3376.124 kb on - strandat 3376.137 kb on - strandat 3376.273 kb on + strand, within PP_2975at 3376.273 kb on + strand, within PP_2975at 3376.273 kb on + strand, within PP_2975at 3376.273 kb on + strand, within PP_2975at 3376.273 kb on + strand, within PP_2975at 3376.273 kb on + strand, within PP_2975at 3376.274 kb on - strand, within PP_2975at 3376.274 kb on - strand, within PP_2975at 3376.366 kb on + strand, within PP_2975at 3376.367 kb on - strand, within PP_2975at 3376.367 kb on - strand, within PP_2975at 3376.367 kb on - strand, within PP_2975at 3376.424 kb on - strandat 3376.490 kb on - strandat 3376.573 kb on - strandat 3376.623 kb on + strand, within PP_2976at 3376.630 kb on + strand, within PP_2976at 3376.987 kb on + strand, within PP_2977at 3376.988 kb on - strand, within PP_2977at 3377.070 kb on + strand, within PP_2977

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH8 and (C) Trisodium citrate
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3,373,602 + PP_2971 0.73 -0.2
3,373,602 + PP_2971 0.73 +1.1
3,373,627 - PP_2971 0.76 -0.4
3,373,653 + PP_2971 0.78 +1.6
3,373,653 + PP_2971 0.78 -0.1
3,373,654 - PP_2971 0.78 -2.2
3,373,654 - PP_2971 0.78 -0.6
3,373,654 - PP_2971 0.78 +0.7
3,373,779 + +0.2
3,373,779 + +0.5
3,373,780 - -3.4
3,373,780 - +0.8
3,373,970 + PP_2972 0.85 -0.8
3,373,970 + PP_2972 0.85 -0.8
3,373,971 - PP_2972 0.85 +2.5
3,374,082 + -3.3
3,374,083 - -0.7
3,374,083 - -1.2
3,374,094 + PP_2973 0.12 -0.5
3,374,094 + PP_2973 0.12 -1.2
3,374,094 + PP_2973 0.12 -0.4
3,374,095 - PP_2973 0.12 -0.1
3,374,095 - PP_2973 0.12 +1.0
3,374,095 - -1.4
3,374,095 - PP_2973 0.12 +0.6
3,374,098 + PP_2973 0.13 -0.6
3,374,099 - PP_2973 0.13 +0.3
3,374,099 - PP_2973 0.13 +0.4
3,374,160 - PP_2973 0.30 -4.1
3,374,162 + PP_2973 0.31 +0.1
3,374,228 + PP_2973 0.49 +0.1
3,374,228 + PP_2973 0.49 +0.1
3,374,262 - PP_2973 0.59 -0.3
3,374,277 - PP_2973 0.63 -0.4
3,374,322 + PP_2973 0.76 -4.5
3,374,322 + PP_2973 0.76 -0.2
3,374,382 + +0.1
3,374,383 - +1.1
3,374,383 - -0.4
3,374,404 + +0.6
3,374,418 + -0.2
3,374,418 + +0.4
3,374,440 + +0.8
3,374,500 + +0.2
3,374,541 + +0.7
3,374,542 - +0.3
3,374,574 + -0.8
3,374,574 + -2.0
3,374,664 + PP_2974 0.13 +0.4
3,374,672 + PP_2974 0.14 -0.8
3,374,674 + PP_2974 0.14 +0.9
3,374,675 - PP_2974 0.14 -0.2
3,374,675 - PP_2974 0.14 -0.9
3,374,766 + PP_2974 0.20 +0.1
3,374,766 + PP_2974 0.20 -0.8
3,374,767 - PP_2974 0.20 +1.6
3,374,767 - PP_2974 0.20 -2.0
3,374,771 - PP_2974 0.20 +0.0
3,374,965 + PP_2974 0.32 +0.8
3,374,967 + PP_2974 0.32 +0.1
3,374,967 + PP_2974 0.32 +0.7
3,374,967 + PP_2974 0.32 +1.3
3,374,968 - PP_2974 0.32 +0.5
3,374,968 - PP_2974 0.32 +1.0
3,374,968 - PP_2974 0.32 -0.4
3,375,035 - PP_2974 0.36 -1.9
3,375,035 - PP_2974 0.36 +0.7
3,375,035 - PP_2974 0.36 +1.1
3,375,058 + PP_2974 0.37 -2.0
3,375,082 + PP_2974 0.39 -2.6
3,375,106 - PP_2974 0.40 +0.4
3,375,124 + PP_2974 0.41 +0.5
3,375,124 + PP_2974 0.41 -0.4
3,375,124 + PP_2974 0.41 -1.4
3,375,153 + PP_2974 0.43 -4.2
3,375,180 - PP_2974 0.45 -0.6
3,375,200 + PP_2974 0.46 -0.3
3,375,279 + PP_2974 0.51 +0.0
3,375,279 + PP_2974 0.51 -0.8
3,375,279 + PP_2974 0.51 -1.9
3,375,280 - PP_2974 0.51 +0.5
3,375,569 + PP_2974 0.68 -3.7
3,375,625 + PP_2974 0.72 +0.1
3,375,625 + PP_2974 0.72 +2.2
3,375,625 + PP_2974 0.72 +0.3
3,375,650 + PP_2974 0.73 -0.0
3,375,650 + PP_2974 0.73 -0.3
3,375,650 + PP_2974 0.73 -3.2
3,375,651 - PP_2974 0.73 -3.2
3,375,651 - PP_2974 0.73 -1.4
3,375,656 + PP_2974 0.74 -0.3
3,375,731 - PP_2974 0.78 +0.8
3,375,753 + PP_2974 0.79 -0.7
3,375,754 - PP_2974 0.79 -0.5
3,375,787 + PP_2974 0.81 +0.2
3,375,787 + PP_2974 0.81 -0.7
3,375,842 + PP_2974 0.85 +0.1
3,375,842 + PP_2974 0.85 -0.1
3,375,842 + PP_2974 0.85 +0.4
3,375,843 - PP_2974 0.85 -2.7
3,375,843 - PP_2974 0.85 +1.0
3,375,843 - PP_2974 0.85 +0.2
3,375,949 + -3.2
3,375,949 + +1.1
3,375,950 - -3.2
3,375,998 - -0.2
3,376,007 + +0.4
3,376,008 - -0.6
3,376,023 + +1.1
3,376,023 + -3.4
3,376,069 - +0.0
3,376,092 - +0.8
3,376,124 - +4.1
3,376,137 - +1.0
3,376,273 + PP_2975 0.43 +0.1
3,376,273 + PP_2975 0.43 +0.4
3,376,273 + PP_2975 0.43 -1.5
3,376,273 + PP_2975 0.43 -1.3
3,376,273 + PP_2975 0.43 +0.2
3,376,273 + PP_2975 0.43 +0.2
3,376,274 - PP_2975 0.43 -0.6
3,376,274 - PP_2975 0.43 +0.6
3,376,366 + PP_2975 0.78 +1.1
3,376,367 - PP_2975 0.78 -0.5
3,376,367 - PP_2975 0.78 +1.6
3,376,367 - PP_2975 0.78 +0.9
3,376,424 - +0.6
3,376,490 - +0.5
3,376,573 - -3.2
3,376,623 + PP_2976 0.16 -1.1
3,376,630 + PP_2976 0.18 -2.6
3,376,987 + PP_2977 0.12 -0.7
3,376,988 - PP_2977 0.12 +0.1
3,377,070 + PP_2977 0.21 +0.1

Or see this region's nucleotide sequence