Strain Fitness in Pseudomonas putida KT2440 around PP_3593

Experiment: 24hr 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_3592 and PP_3593 are separated by 22 nucleotidesPP_3593 and PP_3594 are separated by 104 nucleotidesPP_3594 and PP_3595 overlap by 4 nucleotides PP_3592: PP_3592 - Transcriptional regulator, RpiR family, at 4,082,056 to 4,082,979 _3592 PP_3593: PP_3593 - L-lysine and D-lysine ABC transporter, substrate-binding component (from data), at 4,083,002 to 4,083,754 _3593 PP_3594: PP_3594 - L-lysine and D-lysine ABC transporter, permease component 1 (from data), at 4,083,859 to 4,084,578 _3594 PP_3595: PP_3595 - L-lysine and D-lysine ABC transporter, permease component 2 (from data), at 4,084,575 to 4,085,285 _3595 Position (kb) 4083 4084Strain fitness (log2 ratio) -2 -1 0 1 2 3at 4082.182 kb on + strand, within PP_3592at 4082.182 kb on + strand, within PP_3592at 4082.182 kb on + strand, within PP_3592at 4082.182 kb on + strand, within PP_3592at 4082.182 kb on + strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.183 kb on - strand, within PP_3592at 4082.290 kb on + strand, within PP_3592at 4082.290 kb on + strand, within PP_3592at 4082.291 kb on - strand, within PP_3592at 4082.311 kb on - strand, within PP_3592at 4082.311 kb on - strand, within PP_3592at 4082.375 kb on - strand, within PP_3592at 4082.444 kb on + strand, within PP_3592at 4082.572 kb on + strand, within PP_3592at 4082.572 kb on + strand, within PP_3592at 4082.572 kb on + strand, within PP_3592at 4082.572 kb on + strand, within PP_3592at 4082.573 kb on - strand, within PP_3592at 4082.573 kb on - strand, within PP_3592at 4082.573 kb on - strandat 4082.573 kb on - strand, within PP_3592at 4082.680 kb on + strand, within PP_3592at 4082.927 kb on + strandat 4082.927 kb on + strandat 4082.977 kb on + strandat 4082.978 kb on - strandat 4082.978 kb on - strandat 4082.978 kb on - strandat 4083.110 kb on + strand, within PP_3593at 4083.110 kb on + strand, within PP_3593at 4083.111 kb on - strand, within PP_3593at 4083.111 kb on - strand, within PP_3593at 4083.111 kb on - strand, within PP_3593at 4083.111 kb on - strand, within PP_3593at 4083.111 kb on - strand, within PP_3593at 4083.114 kb on + strand, within PP_3593at 4083.114 kb on + strand, within PP_3593at 4083.115 kb on - strand, within PP_3593at 4083.115 kb on - strand, within PP_3593at 4083.115 kb on - strand, within PP_3593at 4083.245 kb on + strandat 4083.245 kb on + strand, within PP_3593at 4083.245 kb on + strand, within PP_3593at 4083.246 kb on - strand, within PP_3593at 4083.255 kb on + strand, within PP_3593at 4083.314 kb on + strand, within PP_3593at 4083.315 kb on - strand, within PP_3593at 4083.315 kb on - strand, within PP_3593at 4083.318 kb on - strand, within PP_3593at 4083.318 kb on - strand, within PP_3593at 4083.390 kb on - strand, within PP_3593at 4083.415 kb on + strand, within PP_3593at 4083.443 kb on + strand, within PP_3593at 4083.474 kb on - strand, within PP_3593at 4083.746 kb on + strandat 4083.747 kb on - strandat 4083.747 kb on - strandat 4083.837 kb on + strandat 4084.093 kb on + strand, within PP_3594at 4084.093 kb on + strand, within PP_3594at 4084.093 kb on + strand, within PP_3594at 4084.093 kb on + strand, within PP_3594at 4084.093 kb on + strand, within PP_3594at 4084.093 kb on + strand, within PP_3594at 4084.093 kb on + strand, within PP_3594at 4084.094 kb on - strand, within PP_3594at 4084.096 kb on + strand, within PP_3594at 4084.096 kb on + strand, within PP_3594at 4084.287 kb on + strand, within PP_3594at 4084.448 kb on + strand, within PP_3594at 4084.448 kb on + strand, within PP_3594at 4084.492 kb on + strand, within PP_3594at 4084.532 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 30% DO.
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4,082,182 + PP_3592 0.14 -0.2
4,082,182 + PP_3592 0.14 +0.4
4,082,182 + PP_3592 0.14 +0.1
4,082,182 + PP_3592 0.14 +0.6
4,082,182 + PP_3592 0.14 +1.2
4,082,183 - PP_3592 0.14 +0.4
4,082,183 - PP_3592 0.14 -1.2
4,082,183 - PP_3592 0.14 +0.7
4,082,183 - PP_3592 0.14 -0.9
4,082,183 - PP_3592 0.14 -1.7
4,082,183 - PP_3592 0.14 +0.0
4,082,183 - PP_3592 0.14 +0.1
4,082,183 - PP_3592 0.14 +1.3
4,082,290 + PP_3592 0.25 +0.2
4,082,290 + PP_3592 0.25 +0.2
4,082,291 - PP_3592 0.25 +0.9
4,082,311 - PP_3592 0.28 +0.2
4,082,311 - PP_3592 0.28 +0.3
4,082,375 - PP_3592 0.35 -0.7
4,082,444 + PP_3592 0.42 +0.0
4,082,572 + PP_3592 0.56 -1.0
4,082,572 + PP_3592 0.56 +0.7
4,082,572 + PP_3592 0.56 -0.9
4,082,572 + PP_3592 0.56 -1.2
4,082,573 - PP_3592 0.56 +0.4
4,082,573 - PP_3592 0.56 +0.6
4,082,573 - +2.6
4,082,573 - PP_3592 0.56 -1.7
4,082,680 + PP_3592 0.68 -0.1
4,082,927 + +3.0
4,082,927 + -0.6
4,082,977 + -1.9
4,082,978 - -0.6
4,082,978 - +0.7
4,082,978 - +0.2
4,083,110 + PP_3593 0.14 +1.0
4,083,110 + PP_3593 0.14 +0.3
4,083,111 - PP_3593 0.14 +0.3
4,083,111 - PP_3593 0.14 +0.5
4,083,111 - PP_3593 0.14 -0.3
4,083,111 - PP_3593 0.14 -0.0
4,083,111 - PP_3593 0.14 +0.3
4,083,114 + PP_3593 0.15 +0.9
4,083,114 + PP_3593 0.15 -0.5
4,083,115 - PP_3593 0.15 +0.0
4,083,115 - PP_3593 0.15 +1.0
4,083,115 - PP_3593 0.15 -0.5
4,083,245 + +0.3
4,083,245 + PP_3593 0.32 +0.3
4,083,245 + PP_3593 0.32 -0.6
4,083,246 - PP_3593 0.32 +0.2
4,083,255 + PP_3593 0.34 -1.0
4,083,314 + PP_3593 0.41 -0.4
4,083,315 - PP_3593 0.42 -1.4
4,083,315 - PP_3593 0.42 +1.1
4,083,318 - PP_3593 0.42 -1.1
4,083,318 - PP_3593 0.42 +0.2
4,083,390 - PP_3593 0.52 +0.8
4,083,415 + PP_3593 0.55 +0.2
4,083,443 + PP_3593 0.59 +0.3
4,083,474 - PP_3593 0.63 +0.7
4,083,746 + +1.0
4,083,747 - -0.4
4,083,747 - +0.0
4,083,837 + -0.6
4,084,093 + PP_3594 0.33 +0.3
4,084,093 + PP_3594 0.33 -0.7
4,084,093 + PP_3594 0.33 -0.7
4,084,093 + PP_3594 0.33 +0.8
4,084,093 + PP_3594 0.33 -0.9
4,084,093 + PP_3594 0.33 +0.1
4,084,093 + PP_3594 0.33 -0.2
4,084,094 - PP_3594 0.33 +0.1
4,084,096 + PP_3594 0.33 +0.4
4,084,096 + PP_3594 0.33 +0.7
4,084,287 + PP_3594 0.59 +0.0
4,084,448 + PP_3594 0.82 +1.4
4,084,448 + PP_3594 0.82 -0.2
4,084,492 + PP_3594 0.88 +0.3
4,084,532 - +0.5

Or see this region's nucleotide sequence