Strain Fitness in Pseudomonas putida KT2440 around PP_5063

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_5719 and PP_5063 are separated by 39 nucleotidesPP_5063 and PP_5064 are separated by 77 nucleotides PP_5719: PP_5719 - choline-responsive transcriptional repressor BetI, at 5,773,438 to 5,774,094 _5719 PP_5063: PP_5063 - betaine aldehyde dehydrogenase, NAD-dependent, at 5,774,134 to 5,775,606 _5063 PP_5064: PP_5064 - choline dehydrogenase, at 5,775,684 to 5,777,381 _5064 Position (kb) 5774 5775 5776Strain fitness (log2 ratio) -2 -1 0 1 2at 5773.249 kb on + strandat 5773.250 kb on - strandat 5773.431 kb on + strandat 5773.432 kb on - strandat 5773.432 kb on - strandat 5773.453 kb on - strandat 5773.582 kb on + strand, within PP_5719at 5773.624 kb on + strand, within PP_5719at 5773.837 kb on + strand, within PP_5719at 5773.879 kb on + strand, within PP_5719at 5773.879 kb on + strand, within PP_5719at 5773.880 kb on - strand, within PP_5719at 5773.880 kb on - strand, within PP_5719at 5773.996 kb on + strand, within PP_5719at 5773.996 kb on + strand, within PP_5719at 5773.997 kb on - strand, within PP_5719at 5773.997 kb on - strand, within PP_5719at 5774.006 kb on + strand, within PP_5719at 5774.006 kb on + strand, within PP_5719at 5774.006 kb on + strand, within PP_5719at 5774.006 kb on + strand, within PP_5719at 5774.007 kb on - strand, within PP_5719at 5774.133 kb on + strandat 5774.133 kb on + strandat 5774.133 kb on + strandat 5774.134 kb on - strandat 5774.162 kb on - strandat 5774.176 kb on + strandat 5774.176 kb on + strandat 5774.176 kb on + strandat 5774.177 kb on - strandat 5774.177 kb on - strandat 5774.246 kb on + strandat 5774.425 kb on + strand, within PP_5063at 5774.477 kb on - strand, within PP_5063at 5774.479 kb on + strand, within PP_5063at 5774.479 kb on + strand, within PP_5063at 5774.479 kb on + strand, within PP_5063at 5774.479 kb on + strand, within PP_5063at 5774.493 kb on - strand, within PP_5063at 5774.593 kb on + strand, within PP_5063at 5774.594 kb on - strand, within PP_5063at 5774.594 kb on - strand, within PP_5063at 5774.594 kb on - strand, within PP_5063at 5774.594 kb on - strand, within PP_5063at 5774.971 kb on + strand, within PP_5063at 5774.971 kb on + strand, within PP_5063at 5774.972 kb on - strand, within PP_5063at 5775.325 kb on + strand, within PP_5063at 5775.326 kb on - strand, within PP_5063at 5775.499 kb on + strandat 5775.550 kb on + strandat 5775.551 kb on - strandat 5775.551 kb on - strandat 5775.677 kb on + strandat 5775.703 kb on - strandat 5775.775 kb on + strandat 5775.775 kb on + strandat 5775.775 kb on + strandat 5775.775 kb on + strandat 5775.879 kb on + strand, within PP_5064at 5775.901 kb on - strand, within PP_5064at 5775.901 kb on - strand, within PP_5064at 5775.901 kb on - strand, within PP_5064at 5775.975 kb on + strand, within PP_5064at 5775.975 kb on + strand, within PP_5064at 5775.975 kb on + strand, within PP_5064at 5775.976 kb on - strand, within PP_5064at 5775.976 kb on - strand, within PP_5064at 5775.976 kb on - strand, within PP_5064at 5776.041 kb on + strand, within PP_5064at 5776.041 kb on + strand, within PP_5064at 5776.041 kb on + strand, within PP_5064at 5776.041 kb on + strand, within PP_5064at 5776.102 kb on - strand, within PP_5064at 5776.102 kb on - strand, within PP_5064at 5776.102 kb on - strand, within PP_5064at 5776.187 kb on - strand, within PP_5064at 5776.299 kb on + strand, within PP_5064at 5776.398 kb on + strand, within PP_5064at 5776.399 kb on - strand, within PP_5064at 5776.399 kb on - strand, within PP_5064at 5776.399 kb on - strand, within PP_5064at 5776.596 kb on + strand, within PP_5064at 5776.596 kb on + strand, within PP_5064at 5776.596 kb on + strand, within PP_5064at 5776.596 kb on + strand, within PP_5064at 5776.597 kb on - strand, within PP_5064

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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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5,773,249 + -0.1
5,773,250 - -0.2
5,773,431 + +0.3
5,773,432 - +1.2
5,773,432 - +0.6
5,773,453 - +0.4
5,773,582 + PP_5719 0.22 +0.4
5,773,624 + PP_5719 0.28 -0.5
5,773,837 + PP_5719 0.61 -1.3
5,773,879 + PP_5719 0.67 -0.5
5,773,879 + PP_5719 0.67 -0.0
5,773,880 - PP_5719 0.67 -0.4
5,773,880 - PP_5719 0.67 -0.1
5,773,996 + PP_5719 0.85 -0.3
5,773,996 + PP_5719 0.85 -0.0
5,773,997 - PP_5719 0.85 +1.8
5,773,997 - PP_5719 0.85 +0.4
5,774,006 + PP_5719 0.86 -0.0
5,774,006 + PP_5719 0.86 -0.6
5,774,006 + PP_5719 0.86 -1.0
5,774,006 + PP_5719 0.86 +2.4
5,774,007 - PP_5719 0.87 +0.3
5,774,133 + -1.4
5,774,133 + +0.8
5,774,133 + +0.5
5,774,134 - -0.2
5,774,162 - +0.4
5,774,176 + +0.4
5,774,176 + +1.4
5,774,176 + +1.2
5,774,177 - -0.1
5,774,177 - +0.2
5,774,246 + +0.8
5,774,425 + PP_5063 0.20 -0.4
5,774,477 - PP_5063 0.23 -0.5
5,774,479 + PP_5063 0.23 +0.1
5,774,479 + PP_5063 0.23 -0.9
5,774,479 + PP_5063 0.23 +0.4
5,774,479 + PP_5063 0.23 +0.4
5,774,493 - PP_5063 0.24 +0.1
5,774,593 + PP_5063 0.31 +2.4
5,774,594 - PP_5063 0.31 -2.1
5,774,594 - PP_5063 0.31 +0.7
5,774,594 - PP_5063 0.31 +1.4
5,774,594 - PP_5063 0.31 +1.0
5,774,971 + PP_5063 0.57 +2.4
5,774,971 + PP_5063 0.57 +0.4
5,774,972 - PP_5063 0.57 -0.4
5,775,325 + PP_5063 0.81 +1.4
5,775,326 - PP_5063 0.81 -0.2
5,775,499 + -1.4
5,775,550 + -0.2
5,775,551 - +0.9
5,775,551 - -0.9
5,775,677 + +0.1
5,775,703 - -1.1
5,775,775 + -1.9
5,775,775 + +1.4
5,775,775 + -0.1
5,775,775 + -0.2
5,775,879 + PP_5064 0.11 -1.4
5,775,901 - PP_5064 0.13 +1.0
5,775,901 - PP_5064 0.13 +1.5
5,775,901 - PP_5064 0.13 -0.2
5,775,975 + PP_5064 0.17 +0.1
5,775,975 + PP_5064 0.17 +1.4
5,775,975 + PP_5064 0.17 -0.6
5,775,976 - PP_5064 0.17 -2.1
5,775,976 - PP_5064 0.17 -1.2
5,775,976 - PP_5064 0.17 +0.8
5,776,041 + PP_5064 0.21 -1.7
5,776,041 + PP_5064 0.21 -0.8
5,776,041 + PP_5064 0.21 -1.1
5,776,041 + PP_5064 0.21 -0.4
5,776,102 - PP_5064 0.25 +0.4
5,776,102 - PP_5064 0.25 +0.5
5,776,102 - PP_5064 0.25 +0.4
5,776,187 - PP_5064 0.30 +0.5
5,776,299 + PP_5064 0.36 +0.1
5,776,398 + PP_5064 0.42 +0.6
5,776,399 - PP_5064 0.42 -0.4
5,776,399 - PP_5064 0.42 +1.0
5,776,399 - PP_5064 0.42 +0.5
5,776,596 + PP_5064 0.54 +1.4
5,776,596 + PP_5064 0.54 -2.1
5,776,596 + PP_5064 0.54 -0.2
5,776,596 + PP_5064 0.54 -0.4
5,776,597 - PP_5064 0.54 +1.4

Or see this region's nucleotide sequence