Strain Fitness in Pseudomonas putida KT2440 around PP_3846

Experiment: 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% 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_3845 and PP_3846 are separated by 140 nucleotidesPP_3846 and PP_3847 are separated by 120 nucleotidesPP_3847 and PP_5636 overlap by 43 nucleotides PP_3845: PP_3845 - putrescine-binding periplasmic protein, at 4,368,121 to 4,369,230 _3845 PP_3846: PP_3846 - (R)-stereoselective amidase, at 4,369,371 to 4,370,186 _3846 PP_3847: PP_3847 - Transcriptional regulator, LuxR family, at 4,370,307 to 4,371,104 _3847 PP_5636: PP_5636 - protein of unknown function, at 4,371,062 to 4,371,415 _5636 Position (kb) 4369 4370 4371Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 4368.397 kb on - strand, within PP_3845at 4368.437 kb on + strand, within PP_3845at 4368.437 kb on + strand, within PP_3845at 4368.438 kb on - strand, within PP_3845at 4368.438 kb on - strand, within PP_3845at 4368.438 kb on - strand, within PP_3845at 4368.567 kb on - strand, within PP_3845at 4368.573 kb on + strand, within PP_3845at 4368.583 kb on + strand, within PP_3845at 4368.583 kb on + strand, within PP_3845at 4368.614 kb on + strand, within PP_3845at 4368.627 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.638 kb on + strand, within PP_3845at 4368.639 kb on - strand, within PP_3845at 4368.639 kb on - strand, within PP_3845at 4368.653 kb on + strand, within PP_3845at 4368.653 kb on + strand, within PP_3845at 4368.672 kb on + strand, within PP_3845at 4368.673 kb on - strand, within PP_3845at 4368.781 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.789 kb on + strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.790 kb on - strand, within PP_3845at 4368.833 kb on + strand, within PP_3845at 4368.834 kb on - strand, within PP_3845at 4368.846 kb on - strand, within PP_3845at 4368.965 kb on - strand, within PP_3845at 4368.965 kb on - strand, within PP_3845at 4369.055 kb on + strand, within PP_3845at 4369.055 kb on + strand, within PP_3845at 4369.056 kb on - strand, within PP_3845at 4369.056 kb on - strand, within PP_3845at 4369.112 kb on + strand, within PP_3845at 4369.112 kb on + strand, within PP_3845at 4369.112 kb on + strand, within PP_3845at 4369.112 kb on + strand, within PP_3845at 4369.113 kb on - strand, within PP_3845at 4369.113 kb on - strand, within PP_3845at 4369.113 kb on - strand, within PP_3845at 4369.113 kb on - strand, within PP_3845at 4369.118 kb on + strand, within PP_3845at 4369.127 kb on + strandat 4369.127 kb on + strandat 4369.127 kb on + strandat 4369.127 kb on + strandat 4369.127 kb on + strandat 4369.127 kb on + strandat 4369.127 kb on + strandat 4369.127 kb on + strandat 4369.128 kb on - strandat 4369.128 kb on - strandat 4369.128 kb on - strandat 4369.132 kb on - strandat 4369.214 kb on + strandat 4369.215 kb on - strandat 4369.285 kb on + strandat 4369.285 kb on + strandat 4369.286 kb on - strandat 4369.297 kb on + strandat 4369.297 kb on + strandat 4369.297 kb on + strandat 4369.298 kb on - strandat 4369.327 kb on - strandat 4369.456 kb on + strand, within PP_3846at 4369.456 kb on + strand, within PP_3846at 4369.457 kb on - strand, within PP_3846at 4369.492 kb on - strand, within PP_3846at 4369.698 kb on - strand, within PP_3846at 4369.707 kb on + strand, within PP_3846at 4369.707 kb on + strand, within PP_3846at 4369.708 kb on - strand, within PP_3846at 4369.708 kb on - strand, within PP_3846at 4369.708 kb on - strand, within PP_3846at 4369.765 kb on + strand, within PP_3846at 4369.766 kb on - strand, within PP_3846at 4369.766 kb on - strand, within PP_3846at 4369.813 kb on + strand, within PP_3846at 4369.813 kb on + strand, within PP_3846at 4369.814 kb on - strand, within PP_3846at 4369.916 kb on - strand, within PP_3846at 4369.916 kb on - strand, within PP_3846at 4369.916 kb on - strand, within PP_3846at 4369.974 kb on + strand, within PP_3846at 4369.974 kb on + strand, within PP_3846at 4370.105 kb on + strandat 4370.123 kb on + strandat 4370.123 kb on + strandat 4370.123 kb on + strandat 4370.124 kb on - strandat 4370.136 kb on - strandat 4370.137 kb on + strandat 4370.138 kb on - strandat 4370.138 kb on - strandat 4370.138 kb on - strandat 4370.170 kb on - strandat 4370.205 kb on + strandat 4370.205 kb on + strandat 4370.205 kb on + strandat 4370.205 kb on + strandat 4370.206 kb on - strandat 4370.206 kb on - strandat 4370.206 kb on - strandat 4370.206 kb on - strandat 4370.206 kb on - strandat 4370.253 kb on + strandat 4370.254 kb on - strandat 4370.257 kb on + strandat 4370.258 kb on - strandat 4370.269 kb on + strandat 4370.282 kb on - strandat 4370.285 kb on + strandat 4370.286 kb on - strandat 4370.307 kb on - strandat 4370.313 kb on - strandat 4370.327 kb on + strandat 4370.328 kb on - strandat 4370.328 kb on - strandat 4370.368 kb on + strandat 4370.390 kb on + strand, within PP_3847at 4370.423 kb on + strand, within PP_3847at 4370.423 kb on + strand, within PP_3847at 4370.424 kb on - strand, within PP_3847at 4370.424 kb on - strand, within PP_3847at 4370.424 kb on - strand, within PP_3847at 4370.427 kb on + strand, within PP_3847at 4370.427 kb on + strand, within PP_3847at 4370.427 kb on + strand, within PP_3847at 4370.427 kb on + strand, within PP_3847at 4370.428 kb on - strand, within PP_3847at 4370.428 kb on - strand, within PP_3847at 4370.428 kb on - strand, within PP_3847at 4370.536 kb on - strand, within PP_3847at 4370.536 kb on - strand, within PP_3847at 4370.551 kb on - strand, within PP_3847at 4370.551 kb on - strand, within PP_3847at 4370.551 kb on - strand, within PP_3847at 4370.551 kb on - strand, within PP_3847at 4370.551 kb on - strand, within PP_3847at 4370.653 kb on - strand, within PP_3847at 4370.653 kb on - strand, within PP_3847at 4370.653 kb on - strand, within PP_3847at 4370.653 kb on - strand, within PP_3847at 4370.653 kb on - strand, within PP_3847at 4370.661 kb on + strand, within PP_3847at 4370.662 kb on - strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.696 kb on + strand, within PP_3847at 4370.697 kb on - strand, within PP_3847at 4370.697 kb on - strand, within PP_3847at 4370.697 kb on - strand, within PP_3847at 4370.898 kb on - strand, within PP_3847at 4370.898 kb on - strand, within PP_3847at 4370.898 kb on - strand, within PP_3847at 4370.954 kb on + strand, within PP_3847at 4370.954 kb on + strand, within PP_3847at 4370.954 kb on + strand, within PP_3847at 4370.954 kb on + strand, within PP_3847at 4370.955 kb on - strand, within PP_3847at 4371.039 kb on + strandat 4371.039 kb on + strandat 4371.039 kb on + strandat 4371.039 kb on + strandat 4371.039 kb on + strandat 4371.040 kb on - strandat 4371.040 kb on - strandat 4371.040 kb on - strandat 4371.040 kb on - strandat 4371.040 kb on - strand

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Per-strain Table

Position Strand Gene LocusTag Fraction 24hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 10% DO.
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4,368,397 - PP_3845 0.25 -2.1
4,368,437 + PP_3845 0.28 -1.4
4,368,437 + PP_3845 0.28 +4.0
4,368,438 - PP_3845 0.29 +1.7
4,368,438 - PP_3845 0.29 +0.6
4,368,438 - PP_3845 0.29 -0.2
4,368,567 - PP_3845 0.40 +0.0
4,368,573 + PP_3845 0.41 +1.4
4,368,583 + PP_3845 0.42 -1.8
4,368,583 + PP_3845 0.42 +2.4
4,368,614 + PP_3845 0.44 +0.4
4,368,627 + PP_3845 0.46 +0.3
4,368,638 + PP_3845 0.47 -0.9
4,368,638 + PP_3845 0.47 -2.5
4,368,638 + PP_3845 0.47 -0.9
4,368,638 + PP_3845 0.47 +0.2
4,368,639 - PP_3845 0.47 -0.2
4,368,639 - PP_3845 0.47 +0.7
4,368,653 + PP_3845 0.48 +0.2
4,368,653 + PP_3845 0.48 -1.0
4,368,672 + PP_3845 0.50 -0.9
4,368,673 - PP_3845 0.50 -0.9
4,368,781 + PP_3845 0.59 -1.3
4,368,789 + PP_3845 0.60 +1.9
4,368,789 + PP_3845 0.60 +0.4
4,368,789 + PP_3845 0.60 +0.8
4,368,789 + PP_3845 0.60 -1.2
4,368,790 - PP_3845 0.60 -2.3
4,368,790 - PP_3845 0.60 -0.6
4,368,790 - PP_3845 0.60 +0.4
4,368,790 - PP_3845 0.60 +0.6
4,368,790 - PP_3845 0.60 -0.9
4,368,833 + PP_3845 0.64 -0.8
4,368,834 - PP_3845 0.64 -1.0
4,368,846 - PP_3845 0.65 +3.0
4,368,965 - PP_3845 0.76 -1.6
4,368,965 - PP_3845 0.76 -0.4
4,369,055 + PP_3845 0.84 +0.5
4,369,055 + PP_3845 0.84 +0.8
4,369,056 - PP_3845 0.84 +4.0
4,369,056 - PP_3845 0.84 -1.3
4,369,112 + PP_3845 0.89 -1.0
4,369,112 + PP_3845 0.89 +0.6
4,369,112 + PP_3845 0.89 +0.4
4,369,112 + PP_3845 0.89 -2.0
4,369,113 - PP_3845 0.89 +0.8
4,369,113 - PP_3845 0.89 -0.6
4,369,113 - PP_3845 0.89 +3.0
4,369,113 - PP_3845 0.89 +0.5
4,369,118 + PP_3845 0.90 -0.5
4,369,127 + -0.2
4,369,127 + -0.7
4,369,127 + -0.8
4,369,127 + -1.0
4,369,127 + -1.2
4,369,127 + +1.1
4,369,127 + +0.6
4,369,127 + +0.1
4,369,128 - +0.3
4,369,128 - -1.4
4,369,128 - -1.4
4,369,132 - +0.0
4,369,214 + -0.5
4,369,215 - +0.5
4,369,285 + +1.3
4,369,285 + +1.3
4,369,286 - +0.6
4,369,297 + -0.5
4,369,297 + +0.4
4,369,297 + -0.8
4,369,298 - -0.3
4,369,327 - -0.2
4,369,456 + PP_3846 0.10 +0.7
4,369,456 + PP_3846 0.10 +0.7
4,369,457 - PP_3846 0.11 +0.5
4,369,492 - PP_3846 0.15 +0.5
4,369,698 - PP_3846 0.40 -0.1
4,369,707 + PP_3846 0.41 +2.4
4,369,707 + PP_3846 0.41 +0.5
4,369,708 - PP_3846 0.41 +0.2
4,369,708 - PP_3846 0.41 +0.2
4,369,708 - PP_3846 0.41 +0.4
4,369,765 + PP_3846 0.48 -1.6
4,369,766 - PP_3846 0.48 +1.3
4,369,766 - PP_3846 0.48 +0.4
4,369,813 + PP_3846 0.54 -0.4
4,369,813 + PP_3846 0.54 -0.4
4,369,814 - PP_3846 0.54 +1.2
4,369,916 - PP_3846 0.67 +0.2
4,369,916 - PP_3846 0.67 +1.1
4,369,916 - PP_3846 0.67 +0.0
4,369,974 + PP_3846 0.74 +0.9
4,369,974 + PP_3846 0.74 +0.0
4,370,105 + +0.2
4,370,123 + +2.3
4,370,123 + -1.2
4,370,123 + +0.4
4,370,124 - +1.7
4,370,136 - -0.3
4,370,137 + -0.3
4,370,138 - +0.2
4,370,138 - +0.3
4,370,138 - -0.9
4,370,170 - -0.6
4,370,205 + -0.1
4,370,205 + -0.3
4,370,205 + +1.9
4,370,205 + +0.4
4,370,206 - -1.4
4,370,206 - -0.8
4,370,206 - +0.1
4,370,206 - -0.9
4,370,206 - -0.5
4,370,253 + +0.6
4,370,254 - -0.4
4,370,257 + -0.9
4,370,258 - -0.0
4,370,269 + -0.6
4,370,282 - +0.4
4,370,285 + -1.2
4,370,286 - +0.7
4,370,307 - +0.4
4,370,313 - +0.0
4,370,327 + +0.3
4,370,328 - -0.7
4,370,328 - -0.6
4,370,368 + +0.1
4,370,390 + PP_3847 0.10 +0.0
4,370,423 + PP_3847 0.15 -0.0
4,370,423 + PP_3847 0.15 -0.2
4,370,424 - PP_3847 0.15 -1.1
4,370,424 - PP_3847 0.15 +0.5
4,370,424 - PP_3847 0.15 -0.5
4,370,427 + PP_3847 0.15 -0.4
4,370,427 + PP_3847 0.15 -1.4
4,370,427 + PP_3847 0.15 -0.2
4,370,427 + PP_3847 0.15 -0.2
4,370,428 - PP_3847 0.15 -1.5
4,370,428 - PP_3847 0.15 -0.1
4,370,428 - PP_3847 0.15 -1.3
4,370,536 - PP_3847 0.29 +0.1
4,370,536 - PP_3847 0.29 +0.4
4,370,551 - PP_3847 0.31 +0.2
4,370,551 - PP_3847 0.31 +0.4
4,370,551 - PP_3847 0.31 +0.3
4,370,551 - PP_3847 0.31 -0.1
4,370,551 - PP_3847 0.31 -0.6
4,370,653 - PP_3847 0.43 +1.4
4,370,653 - PP_3847 0.43 -0.2
4,370,653 - PP_3847 0.43 -0.3
4,370,653 - PP_3847 0.43 -0.3
4,370,653 - PP_3847 0.43 -1.3
4,370,661 + PP_3847 0.44 +1.2
4,370,662 - PP_3847 0.44 +0.3
4,370,696 + PP_3847 0.49 -1.6
4,370,696 + PP_3847 0.49 +0.0
4,370,696 + PP_3847 0.49 -1.6
4,370,696 + PP_3847 0.49 -0.3
4,370,696 + PP_3847 0.49 +0.6
4,370,696 + PP_3847 0.49 +0.3
4,370,696 + PP_3847 0.49 +2.0
4,370,696 + PP_3847 0.49 -2.0
4,370,697 - PP_3847 0.49 +0.5
4,370,697 - PP_3847 0.49 +0.3
4,370,697 - PP_3847 0.49 -0.2
4,370,898 - PP_3847 0.74 -0.5
4,370,898 - PP_3847 0.74 -1.4
4,370,898 - PP_3847 0.74 -0.8
4,370,954 + PP_3847 0.81 +0.4
4,370,954 + PP_3847 0.81 -0.1
4,370,954 + PP_3847 0.81 -0.1
4,370,954 + PP_3847 0.81 +1.8
4,370,955 - PP_3847 0.81 -0.0
4,371,039 + +2.1
4,371,039 + -0.0
4,371,039 + -1.1
4,371,039 + +3.0
4,371,039 + -0.1
4,371,040 - -1.0
4,371,040 - +0.0
4,371,040 - +0.2
4,371,040 - +0.8
4,371,040 - -1.7

Or see this region's nucleotide sequence