Strain Fitness in Pseudomonas putida KT2440 around PP_3888

Experiment: Growth at pH9 and (C) D-Glucose

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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_3886 and PP_3887 overlap by 17 nucleotidesPP_3887 and PP_3888 are separated by 12 nucleotidesPP_3888 and PP_3889 overlap by 4 nucleotides PP_3886: PP_3886 - conserved protein of unknown function, at 4,405,300 to 4,405,560 _3886 PP_3887: PP_3887 - conserved protein of unknown function, at 4,405,544 to 4,406,215 _3887 PP_3888: PP_3888 - conserved protein of unknown function, at 4,406,228 to 4,406,548 _3888 PP_3889: PP_3889 - putative Phage integrase, at 4,406,545 to 4,407,843 _3889 Position (kb) 4406 4407Strain fitness (log2 ratio) -2 -1 0 1 2at 4405.267 kb on + strandat 4405.267 kb on + strandat 4405.268 kb on - strandat 4405.268 kb on - strandat 4405.268 kb on - strandat 4405.268 kb on - strandat 4405.281 kb on + strandat 4405.282 kb on - strandat 4405.404 kb on + strand, within PP_3886at 4405.625 kb on - strand, within PP_3887at 4405.762 kb on + strand, within PP_3887at 4405.794 kb on + strand, within PP_3887at 4405.794 kb on + strand, within PP_3887at 4405.896 kb on + strand, within PP_3887at 4405.896 kb on + strand, within PP_3887at 4405.897 kb on - strand, within PP_3887at 4405.907 kb on - strand, within PP_3887at 4405.951 kb on + strand, within PP_3887at 4405.952 kb on - strand, within PP_3887at 4405.955 kb on + strand, within PP_3887at 4405.955 kb on + strand, within PP_3887at 4405.993 kb on + strand, within PP_3887at 4405.993 kb on + strand, within PP_3887at 4405.993 kb on + strand, within PP_3887at 4405.994 kb on - strand, within PP_3887at 4405.994 kb on - strand, within PP_3887at 4406.043 kb on + strand, within PP_3887at 4406.044 kb on - strand, within PP_3887at 4406.044 kb on - strand, within PP_3887at 4406.207 kb on + strandat 4406.280 kb on + strand, within PP_3888at 4406.280 kb on + strand, within PP_3888at 4406.282 kb on + strand, within PP_3888at 4406.282 kb on + strand, within PP_3888at 4406.282 kb on + strand, within PP_3888at 4406.386 kb on + strand, within PP_3888at 4406.386 kb on + strand, within PP_3888at 4406.635 kb on + strandat 4406.635 kb on + strandat 4406.741 kb on + strand, within PP_3889at 4406.741 kb on + strand, within PP_3889at 4406.741 kb on + strand, within PP_3889at 4406.741 kb on + strand, within PP_3889at 4406.936 kb on + strand, within PP_3889at 4406.937 kb on - strand, within PP_3889at 4406.948 kb on + strand, within PP_3889at 4406.948 kb on + strand, within PP_3889at 4407.359 kb on + strand, within PP_3889at 4407.402 kb on + strand, within PP_3889at 4407.402 kb on + strand, within PP_3889at 4407.402 kb on + strand, within PP_3889at 4407.425 kb on + strand, within PP_3889at 4407.425 kb on + strand, within PP_3889at 4407.425 kb on + strand, within PP_3889at 4407.426 kb on - strand, within PP_3889at 4407.426 kb on - strand, within PP_3889at 4407.445 kb on + strand, within PP_3889at 4407.446 kb on - strand, within PP_3889at 4407.492 kb on + strand, within PP_3889at 4407.492 kb on + strand, within PP_3889at 4407.492 kb on + strand, within PP_3889at 4407.493 kb on - strand, within PP_3889at 4407.493 kb on - strand, within PP_3889at 4407.493 kb on - strand, within PP_3889at 4407.536 kb on + strand, within PP_3889at 4407.536 kb on + strand, within PP_3889at 4407.536 kb on + strandat 4407.537 kb on - strand, within PP_3889

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH9 and (C) D-Glucose
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4,405,267 + +0.1
4,405,267 + +1.3
4,405,268 - -0.5
4,405,268 - -0.0
4,405,268 - -0.3
4,405,268 - +0.1
4,405,281 + -0.4
4,405,282 - -0.4
4,405,404 + PP_3886 0.40 -0.6
4,405,625 - PP_3887 0.12 +0.2
4,405,762 + PP_3887 0.32 +0.3
4,405,794 + PP_3887 0.37 -0.4
4,405,794 + PP_3887 0.37 -0.4
4,405,896 + PP_3887 0.52 -0.7
4,405,896 + PP_3887 0.52 -0.4
4,405,897 - PP_3887 0.53 +1.3
4,405,907 - PP_3887 0.54 -0.4
4,405,951 + PP_3887 0.61 -0.5
4,405,952 - PP_3887 0.61 -0.0
4,405,955 + PP_3887 0.61 +0.2
4,405,955 + PP_3887 0.61 -0.2
4,405,993 + PP_3887 0.67 +0.6
4,405,993 + PP_3887 0.67 -0.3
4,405,993 + PP_3887 0.67 +0.5
4,405,994 - PP_3887 0.67 +0.3
4,405,994 - PP_3887 0.67 +0.9
4,406,043 + PP_3887 0.74 +0.7
4,406,044 - PP_3887 0.74 +0.0
4,406,044 - PP_3887 0.74 -0.0
4,406,207 + -0.6
4,406,280 + PP_3888 0.16 +0.0
4,406,280 + PP_3888 0.16 +0.9
4,406,282 + PP_3888 0.17 +0.5
4,406,282 + PP_3888 0.17 -0.0
4,406,282 + PP_3888 0.17 +0.4
4,406,386 + PP_3888 0.49 +1.2
4,406,386 + PP_3888 0.49 +0.5
4,406,635 + -0.1
4,406,635 + -1.2
4,406,741 + PP_3889 0.15 -0.5
4,406,741 + PP_3889 0.15 -1.4
4,406,741 + PP_3889 0.15 +0.2
4,406,741 + PP_3889 0.15 +1.0
4,406,936 + PP_3889 0.30 +0.7
4,406,937 - PP_3889 0.30 -2.0
4,406,948 + PP_3889 0.31 -0.2
4,406,948 + PP_3889 0.31 -0.3
4,407,359 + PP_3889 0.63 +1.5
4,407,402 + PP_3889 0.66 -0.9
4,407,402 + PP_3889 0.66 +0.8
4,407,402 + PP_3889 0.66 +0.8
4,407,425 + PP_3889 0.68 -0.7
4,407,425 + PP_3889 0.68 +0.0
4,407,425 + PP_3889 0.68 -0.3
4,407,426 - PP_3889 0.68 +0.8
4,407,426 - PP_3889 0.68 -0.1
4,407,445 + PP_3889 0.69 -0.8
4,407,446 - PP_3889 0.69 -0.4
4,407,492 + PP_3889 0.73 +0.5
4,407,492 + PP_3889 0.73 -0.1
4,407,492 + PP_3889 0.73 -0.7
4,407,493 - PP_3889 0.73 -0.3
4,407,493 - PP_3889 0.73 -0.1
4,407,493 - PP_3889 0.73 -0.5
4,407,536 + PP_3889 0.76 -0.4
4,407,536 + PP_3889 0.76 -0.3
4,407,536 + +1.9
4,407,537 - PP_3889 0.76 -0.0

Or see this region's nucleotide sequence