Strain Fitness in Pseudomonas putida KT2440 around PP_0506

Experiment: Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_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 ntPP_0504 and PP_0505 are separated by 109 nucleotidesPP_0505 and PP_0506 are separated by 126 nucleotidesPP_0506 and PP_0507 overlap by 1 nucleotidesPP_0507 and PP_0508 are separated by 0 nucleotides PP_0504: PP_0504 - Outer membrane protein OprG, at 593,456 to 594,139 _0504 PP_0505: PP_0505 - conserved protein of unknown function, at 594,249 to 594,761 _0505 PP_0506: PP_0506 - putative ABC efflux transporter, permease protein, at 594,888 to 596,153 _0506 PP_0507: PP_0507 - putative ABC efflux transporter, ATP-binding protein, at 596,153 to 596,863 _0507 PP_0508: PP_0508 - conserved exported protein of unknown function, at 596,864 to 597,445 _0508 Position (kb) 594 595 596 597Strain fitness (log2 ratio) -2 -1 0 1 2 3at 593.925 kb on + strand, within PP_0504at 593.926 kb on - strand, within PP_0504at 593.926 kb on - strand, within PP_0504at 593.926 kb on - strand, within PP_0504at 593.926 kb on - strandat 594.072 kb on + strandat 594.181 kb on + strandat 594.262 kb on + strandat 594.263 kb on - strandat 594.263 kb on - strandat 594.263 kb on - strandat 594.352 kb on + strand, within PP_0505at 594.361 kb on + strand, within PP_0505at 594.362 kb on - strand, within PP_0505at 594.448 kb on + strand, within PP_0505at 594.448 kb on + strand, within PP_0505at 594.449 kb on - strand, within PP_0505at 594.449 kb on - strand, within PP_0505at 594.449 kb on - strand, within PP_0505at 594.451 kb on + strand, within PP_0505at 594.452 kb on - strandat 594.452 kb on - strand, within PP_0505at 594.452 kb on - strand, within PP_0505at 594.511 kb on + strand, within PP_0505at 594.549 kb on + strand, within PP_0505at 594.550 kb on - strand, within PP_0505at 594.798 kb on + strandat 594.879 kb on + strandat 594.879 kb on + strandat 594.897 kb on + strandat 594.897 kb on + strandat 594.897 kb on + strandat 594.897 kb on + strandat 594.897 kb on + strandat 594.897 kb on + strandat 594.898 kb on - strandat 594.898 kb on - strandat 594.898 kb on - strandat 594.980 kb on + strandat 595.027 kb on + strand, within PP_0506at 595.027 kb on + strand, within PP_0506at 595.028 kb on - strand, within PP_0506at 595.028 kb on - strand, within PP_0506at 595.028 kb on - strand, within PP_0506at 595.028 kb on - strand, within PP_0506at 595.036 kb on + strand, within PP_0506at 595.036 kb on + strand, within PP_0506at 595.037 kb on - strand, within PP_0506at 595.037 kb on - strand, within PP_0506at 595.037 kb on - strand, within PP_0506at 595.037 kb on - strand, within PP_0506at 595.037 kb on - strand, within PP_0506at 595.051 kb on + strand, within PP_0506at 595.051 kb on + strand, within PP_0506at 595.051 kb on + strand, within PP_0506at 595.051 kb on + strand, within PP_0506at 595.051 kb on + strand, within PP_0506at 595.052 kb on - strand, within PP_0506at 595.052 kb on - strand, within PP_0506at 595.052 kb on - strand, within PP_0506at 595.052 kb on - strand, within PP_0506at 595.052 kb on - strand, within PP_0506at 595.052 kb on - strand, within PP_0506at 595.078 kb on + strand, within PP_0506at 595.078 kb on + strand, within PP_0506at 595.078 kb on + strand, within PP_0506at 595.078 kb on + strand, within PP_0506at 595.078 kb on + strand, within PP_0506at 595.080 kb on + strand, within PP_0506at 595.080 kb on + strand, within PP_0506at 595.080 kb on + strand, within PP_0506at 595.080 kb on + strand, within PP_0506at 595.080 kb on + strand, within PP_0506at 595.080 kb on + strand, within PP_0506at 595.080 kb on + strand, within PP_0506at 595.081 kb on - strand, within PP_0506at 595.081 kb on - strand, within PP_0506at 595.081 kb on - strand, within PP_0506at 595.081 kb on - strand, within PP_0506at 595.081 kb on - strand, within PP_0506at 595.081 kb on - strand, within PP_0506at 595.151 kb on + strand, within PP_0506at 595.152 kb on - strand, within PP_0506at 595.264 kb on - strand, within PP_0506at 595.335 kb on + strand, within PP_0506at 595.335 kb on + strand, within PP_0506at 595.336 kb on - strand, within PP_0506at 595.336 kb on - strand, within PP_0506at 595.501 kb on - strand, within PP_0506at 595.551 kb on - strand, within PP_0506at 595.590 kb on + strand, within PP_0506at 595.605 kb on - strand, within PP_0506at 595.681 kb on + strand, within PP_0506at 595.681 kb on + strand, within PP_0506at 595.681 kb on + strand, within PP_0506at 595.682 kb on - strand, within PP_0506at 595.781 kb on - strand, within PP_0506at 595.781 kb on - strand, within PP_0506at 595.781 kb on - strand, within PP_0506at 595.786 kb on + strand, within PP_0506at 595.786 kb on + strand, within PP_0506at 595.888 kb on + strand, within PP_0506at 595.888 kb on + strand, within PP_0506at 595.889 kb on - strand, within PP_0506at 595.889 kb on - strand, within PP_0506at 595.889 kb on - strand, within PP_0506at 595.916 kb on + strand, within PP_0506at 595.916 kb on + strand, within PP_0506at 595.917 kb on - strand, within PP_0506at 595.948 kb on + strand, within PP_0506at 595.948 kb on + strand, within PP_0506at 595.949 kb on - strand, within PP_0506at 596.150 kb on - strandat 596.562 kb on - strand, within PP_0507at 596.599 kb on + strand, within PP_0507at 596.599 kb on + strand, within PP_0507at 596.600 kb on - strand, within PP_0507at 596.600 kb on - strand, within PP_0507at 596.600 kb on - strand, within PP_0507at 596.600 kb on - strand, within PP_0507at 596.600 kb on - strand, within PP_0507at 596.601 kb on + strand, within PP_0507at 596.601 kb on + strand, within PP_0507at 596.601 kb on + strand, within PP_0507at 596.601 kb on + strand, within PP_0507at 596.602 kb on - strand, within PP_0507at 596.602 kb on - strand, within PP_0507at 597.024 kb on + strand, within PP_0508at 597.025 kb on - strand, within PP_0508at 597.025 kb on - strand, within PP_0508

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Per-strain Table

Position Strand Gene LocusTag Fraction Plant=Zea_mays; PlantTreatment=25mM_NaCl; Sample=rhizosphere; GrowthSubstrate=sand_vermiculite_perlite_mix; Collection=16_outgrowth_LB; Time=7_days
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593,925 + PP_0504 0.69 -0.7
593,926 - PP_0504 0.69 -0.7
593,926 - PP_0504 0.69 +1.9
593,926 - PP_0504 0.69 +1.3
593,926 - +1.9
594,072 + -2.4
594,181 + -1.1
594,262 + -0.8
594,263 - +0.3
594,263 - -0.4
594,263 - -0.0
594,352 + PP_0505 0.20 +1.6
594,361 + PP_0505 0.22 -2.0
594,362 - PP_0505 0.22 +1.4
594,448 + PP_0505 0.39 -0.9
594,448 + PP_0505 0.39 +0.3
594,449 - PP_0505 0.39 +0.4
594,449 - PP_0505 0.39 +0.6
594,449 - PP_0505 0.39 -2.3
594,451 + PP_0505 0.39 +0.6
594,452 - +1.9
594,452 - PP_0505 0.40 -0.5
594,452 - PP_0505 0.40 +0.3
594,511 + PP_0505 0.51 -1.9
594,549 + PP_0505 0.58 -0.8
594,550 - PP_0505 0.59 -2.6
594,798 + -1.7
594,879 + -0.6
594,879 + -1.4
594,897 + -0.7
594,897 + -0.1
594,897 + +0.4
594,897 + -0.7
594,897 + -1.0
594,897 + +0.2
594,898 - -0.7
594,898 - +2.3
594,898 - -0.2
594,980 + -1.9
595,027 + PP_0506 0.11 +1.3
595,027 + PP_0506 0.11 -1.3
595,028 - PP_0506 0.11 -1.6
595,028 - PP_0506 0.11 -1.2
595,028 - PP_0506 0.11 -2.0
595,028 - PP_0506 0.11 -2.0
595,036 + PP_0506 0.12 -2.7
595,036 + PP_0506 0.12 -0.4
595,037 - PP_0506 0.12 +0.0
595,037 - PP_0506 0.12 +0.3
595,037 - PP_0506 0.12 +0.2
595,037 - PP_0506 0.12 -2.3
595,037 - PP_0506 0.12 +0.9
595,051 + PP_0506 0.13 -1.0
595,051 + PP_0506 0.13 -1.0
595,051 + PP_0506 0.13 +0.5
595,051 + PP_0506 0.13 +0.3
595,051 + PP_0506 0.13 +1.9
595,052 - PP_0506 0.13 -1.0
595,052 - PP_0506 0.13 +0.6
595,052 - PP_0506 0.13 -0.7
595,052 - PP_0506 0.13 -0.8
595,052 - PP_0506 0.13 -2.0
595,052 - PP_0506 0.13 -0.9
595,078 + PP_0506 0.15 +3.6
595,078 + PP_0506 0.15 -0.5
595,078 + PP_0506 0.15 +0.1
595,078 + PP_0506 0.15 +2.8
595,078 + PP_0506 0.15 -0.7
595,080 + PP_0506 0.15 -1.3
595,080 + PP_0506 0.15 +0.3
595,080 + PP_0506 0.15 -1.4
595,080 + PP_0506 0.15 -0.8
595,080 + PP_0506 0.15 -0.3
595,080 + PP_0506 0.15 +1.5
595,080 + PP_0506 0.15 -0.2
595,081 - PP_0506 0.15 +0.1
595,081 - PP_0506 0.15 +0.1
595,081 - PP_0506 0.15 -1.0
595,081 - PP_0506 0.15 +2.2
595,081 - PP_0506 0.15 -1.7
595,081 - PP_0506 0.15 -0.3
595,151 + PP_0506 0.21 +1.0
595,152 - PP_0506 0.21 +0.4
595,264 - PP_0506 0.30 +0.2
595,335 + PP_0506 0.35 -1.0
595,335 + PP_0506 0.35 +0.5
595,336 - PP_0506 0.35 -2.0
595,336 - PP_0506 0.35 +1.1
595,501 - PP_0506 0.48 +0.6
595,551 - PP_0506 0.52 +0.1
595,590 + PP_0506 0.55 -1.6
595,605 - PP_0506 0.57 -1.2
595,681 + PP_0506 0.63 -1.1
595,681 + PP_0506 0.63 -2.5
595,681 + PP_0506 0.63 +0.6
595,682 - PP_0506 0.63 -0.6
595,781 - PP_0506 0.71 +0.5
595,781 - PP_0506 0.71 -0.1
595,781 - PP_0506 0.71 +0.3
595,786 + PP_0506 0.71 +1.0
595,786 + PP_0506 0.71 -1.6
595,888 + PP_0506 0.79 -1.6
595,888 + PP_0506 0.79 +0.0
595,889 - PP_0506 0.79 +0.4
595,889 - PP_0506 0.79 +0.3
595,889 - PP_0506 0.79 -0.5
595,916 + PP_0506 0.81 -2.2
595,916 + PP_0506 0.81 -2.6
595,917 - PP_0506 0.81 +1.0
595,948 + PP_0506 0.84 -1.7
595,948 + PP_0506 0.84 -1.7
595,949 - PP_0506 0.84 +2.4
596,150 - -0.4
596,562 - PP_0507 0.58 -0.3
596,599 + PP_0507 0.63 +0.3
596,599 + PP_0507 0.63 +0.3
596,600 - PP_0507 0.63 +1.6
596,600 - PP_0507 0.63 +1.4
596,600 - PP_0507 0.63 +3.3
596,600 - PP_0507 0.63 -0.8
596,600 - PP_0507 0.63 +1.8
596,601 + PP_0507 0.63 -0.0
596,601 + PP_0507 0.63 +0.0
596,601 + PP_0507 0.63 -1.4
596,601 + PP_0507 0.63 -0.4
596,602 - PP_0507 0.63 -0.6
596,602 - PP_0507 0.63 +1.9
597,024 + PP_0508 0.27 -0.1
597,025 - PP_0508 0.28 -0.2
597,025 - PP_0508 0.28 +2.5

Or see this region's nucleotide sequence