Strain Fitness in Pseudomonas putida KT2440 around PP_0055

Experiment: C.elegans, mixed culture-1

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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_0053 and PP_0054 overlap by 43 nucleotidesPP_0054 and PP_0055 overlap by 12 nucleotidesPP_0055 and PP_0056 are separated by 227 nucleotides PP_0053: PP_0053 - putative sulfide:quinone oxidoreductase, at 61,756 to 63,024 _0053 PP_0054: PP_0054 - conserved membrane protein of unknown function, at 62,982 to 63,839 _0054 PP_0055: PP_0055 - transcriptional regulator, at 63,828 to 64,715 _0055 PP_0056: PP_0056 - choline dehydrogenase, at 64,943 to 66,595 _0056 Position (kb) 63 64 65Strain fitness (log2 ratio) -3 -2 -1 0 1at 62.851 kb on + strand, within PP_0053at 62.851 kb on + strand, within PP_0053at 62.851 kb on + strand, within PP_0053at 62.852 kb on - strand, within PP_0053at 62.852 kb on - strand, within PP_0053at 62.852 kb on - strand, within PP_0053at 63.112 kb on + strand, within PP_0054at 63.113 kb on - strand, within PP_0054at 63.178 kb on + strand, within PP_0054at 63.178 kb on + strandat 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.179 kb on - strand, within PP_0054at 63.332 kb on - strand, within PP_0054at 63.351 kb on + strand, within PP_0054at 63.351 kb on + strand, within PP_0054at 63.352 kb on - strand, within PP_0054at 63.576 kb on + strand, within PP_0054at 63.576 kb on + strand, within PP_0054at 63.829 kb on + strandat 63.877 kb on + strandat 63.878 kb on - strandat 63.878 kb on - strandat 63.937 kb on + strand, within PP_0055at 64.000 kb on + strand, within PP_0055at 64.000 kb on + strand, within PP_0055at 64.001 kb on - strand, within PP_0055at 64.001 kb on - strand, within PP_0055at 64.001 kb on - strand, within PP_0055at 64.087 kb on - strand, within PP_0055at 64.144 kb on + strandat 64.207 kb on + strand, within PP_0055at 64.207 kb on + strand, within PP_0055at 64.207 kb on + strand, within PP_0055at 64.222 kb on + strand, within PP_0055at 64.222 kb on + strand, within PP_0055at 64.222 kb on + strandat 64.223 kb on - strand, within PP_0055at 64.223 kb on - strand, within PP_0055at 64.223 kb on - strand, within PP_0055at 64.223 kb on - strand, within PP_0055at 64.224 kb on + strand, within PP_0055at 64.237 kb on + strand, within PP_0055at 64.366 kb on + strand, within PP_0055at 64.608 kb on - strand, within PP_0055at 64.631 kb on + strandat 64.632 kb on - strandat 64.726 kb on + strandat 64.726 kb on + strandat 64.750 kb on - strandat 64.788 kb on + strandat 64.831 kb on + strandat 64.904 kb on + strandat 64.905 kb on - strandat 64.925 kb on + strandat 64.926 kb on - strandat 64.926 kb on - strandat 64.926 kb on - strandat 64.976 kb on + strandat 64.976 kb on + strandat 64.976 kb on + strandat 64.977 kb on - strandat 65.081 kb on + strandat 65.081 kb on + strandat 65.081 kb on + strandat 65.082 kb on - strandat 65.082 kb on - strandat 65.082 kb on - strandat 65.082 kb on - strandat 65.108 kb on + strandat 65.114 kb on + strand, within PP_0056at 65.114 kb on + strand, within PP_0056at 65.193 kb on - strand, within PP_0056at 65.211 kb on + strand, within PP_0056at 65.211 kb on + strand, within PP_0056at 65.211 kb on + strand, within PP_0056at 65.212 kb on - strand, within PP_0056at 65.212 kb on - strand, within PP_0056at 65.212 kb on - strand, within PP_0056at 65.243 kb on + strand, within PP_0056at 65.243 kb on + strand, within PP_0056at 65.244 kb on - strand, within PP_0056at 65.244 kb on - strand, within PP_0056at 65.320 kb on - strand, within PP_0056at 65.320 kb on - strand, within PP_0056at 65.408 kb on + strand, within PP_0056at 65.409 kb on - strand, within PP_0056at 65.409 kb on - strand, within PP_0056at 65.622 kb on + strand, within PP_0056at 65.622 kb on + strand, within PP_0056at 65.622 kb on + strand, within PP_0056at 65.622 kb on + strand, within PP_0056at 65.623 kb on - strand, within PP_0056at 65.623 kb on - strand, within PP_0056

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Per-strain Table

Position Strand Gene LocusTag Fraction C.elegans, mixed culture-1
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62,851 + PP_0053 0.86 -1.1
62,851 + PP_0053 0.86 -0.9
62,851 + PP_0053 0.86 -0.8
62,852 - PP_0053 0.86 +0.8
62,852 - PP_0053 0.86 -0.9
62,852 - PP_0053 0.86 +0.1
63,112 + PP_0054 0.15 -0.3
63,113 - PP_0054 0.15 -0.4
63,178 + PP_0054 0.23 -0.0
63,178 + -0.6
63,179 - PP_0054 0.23 -0.2
63,179 - PP_0054 0.23 +0.1
63,179 - PP_0054 0.23 -0.6
63,179 - PP_0054 0.23 -0.4
63,179 - PP_0054 0.23 +0.4
63,332 - PP_0054 0.41 -0.3
63,351 + PP_0054 0.43 +0.1
63,351 + PP_0054 0.43 +0.1
63,352 - PP_0054 0.43 -1.4
63,576 + PP_0054 0.69 -0.1
63,576 + PP_0054 0.69 -0.8
63,829 + +0.4
63,877 + -0.5
63,878 - +0.2
63,878 - +0.3
63,937 + PP_0055 0.12 -1.1
64,000 + PP_0055 0.19 +0.1
64,000 + PP_0055 0.19 -0.3
64,001 - PP_0055 0.19 -1.4
64,001 - PP_0055 0.19 +0.5
64,001 - PP_0055 0.19 -0.8
64,087 - PP_0055 0.29 -0.3
64,144 + +0.4
64,207 + PP_0055 0.43 +0.1
64,207 + PP_0055 0.43 +0.6
64,207 + PP_0055 0.43 -0.2
64,222 + PP_0055 0.44 +0.9
64,222 + PP_0055 0.44 -1.5
64,222 + +0.0
64,223 - PP_0055 0.44 +0.1
64,223 - PP_0055 0.44 -1.5
64,223 - PP_0055 0.44 -2.8
64,223 - PP_0055 0.44 -1.0
64,224 + PP_0055 0.45 +0.5
64,237 + PP_0055 0.46 -0.1
64,366 + PP_0055 0.61 -0.4
64,608 - PP_0055 0.88 -0.5
64,631 + -0.4
64,632 - +0.0
64,726 + -0.2
64,726 + +0.0
64,750 - +0.8
64,788 + -2.4
64,831 + -0.9
64,904 + +0.3
64,905 - -0.1
64,925 + -0.1
64,926 - +0.3
64,926 - -0.3
64,926 - -0.0
64,976 + +0.8
64,976 + -0.3
64,976 + -0.4
64,977 - -1.3
65,081 + -0.4
65,081 + -3.1
65,081 + -0.9
65,082 - -1.2
65,082 - +0.3
65,082 - -0.2
65,082 - -0.7
65,108 + +0.3
65,114 + PP_0056 0.10 +1.0
65,114 + PP_0056 0.10 -0.3
65,193 - PP_0056 0.15 -1.0
65,211 + PP_0056 0.16 -0.1
65,211 + PP_0056 0.16 -1.3
65,211 + PP_0056 0.16 -0.6
65,212 - PP_0056 0.16 -1.3
65,212 - PP_0056 0.16 +0.2
65,212 - PP_0056 0.16 -0.1
65,243 + PP_0056 0.18 +0.5
65,243 + PP_0056 0.18 -0.5
65,244 - PP_0056 0.18 -1.5
65,244 - PP_0056 0.18 -1.0
65,320 - PP_0056 0.23 +0.9
65,320 - PP_0056 0.23 +0.4
65,408 + PP_0056 0.28 -0.6
65,409 - PP_0056 0.28 +1.0
65,409 - PP_0056 0.28 +0.4
65,622 + PP_0056 0.41 +0.7
65,622 + PP_0056 0.41 +0.4
65,622 + PP_0056 0.41 +0.0
65,622 + PP_0056 0.41 -0.1
65,623 - PP_0056 0.41 -0.2
65,623 - PP_0056 0.41 -1.9

Or see this region's nucleotide sequence