Strain Fitness in Pseudomonas putida KT2440 around PP_1061

Experiment: Growth at pH8 and (C) Trisodium citrate

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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_1060 and PP_1061 are separated by 187 nucleotidesPP_1061 and PP_1062 are separated by 136 nucleotidesPP_1062 and PP_1063 overlap by 17 nucleotides PP_1060: PP_1060 - putative Glutamate synthase, large subunit, at 1,210,847 to 1,212,466 _1060 PP_1061: PP_1061 - putative ATP-dependent DNA helicase lhr, at 1,212,654 to 1,216,958 _1061 PP_1062: PP_1062 - MutT/nudix family protein, at 1,217,095 to 1,217,508 _1062 PP_1063: PP_1063 - DNA-binding transcriptional regulator, homocysteine-binding, at 1,217,492 to 1,218,409 _1063 Position (kb) 1212 1213 1214 1215 1216 1217Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2at 1211.699 kb on + strand, within PP_1060at 1211.699 kb on + strand, within PP_1060at 1211.875 kb on - strand, within PP_1060at 1212.006 kb on + strand, within PP_1060at 1212.111 kb on + strand, within PP_1060at 1212.111 kb on + strand, within PP_1060at 1212.111 kb on + strand, within PP_1060at 1212.112 kb on - strand, within PP_1060at 1212.112 kb on - strand, within PP_1060at 1212.112 kb on - strand, within PP_1060at 1212.112 kb on - strand, within PP_1060at 1212.112 kb on - strand, within PP_1060at 1212.113 kb on + strand, within PP_1060at 1212.113 kb on + strand, within PP_1060at 1212.114 kb on - strand, within PP_1060at 1212.114 kb on - strand, within PP_1060at 1212.114 kb on - strand, within PP_1060at 1212.114 kb on - strand, within PP_1060at 1212.114 kb on - strand, within PP_1060at 1212.168 kb on + strand, within PP_1060at 1212.265 kb on - strand, within PP_1060at 1212.289 kb on - strand, within PP_1060at 1212.466 kb on + strandat 1212.466 kb on + strandat 1212.467 kb on - strandat 1212.467 kb on - strandat 1212.549 kb on + strandat 1212.670 kb on + strandat 1212.745 kb on + strandat 1212.746 kb on - strandat 1212.746 kb on - strandat 1212.752 kb on - strandat 1212.927 kb on + strandat 1212.927 kb on + strandat 1212.927 kb on + strandat 1212.928 kb on - strandat 1212.928 kb on - strandat 1212.928 kb on - strandat 1212.928 kb on - strandat 1212.930 kb on + strandat 1212.931 kb on - strandat 1213.018 kb on + strandat 1213.050 kb on + strandat 1213.051 kb on - strandat 1213.051 kb on - strandat 1213.229 kb on + strand, within PP_1061at 1213.229 kb on + strand, within PP_1061at 1213.425 kb on + strand, within PP_1061at 1213.425 kb on + strand, within PP_1061at 1213.426 kb on - strand, within PP_1061at 1213.600 kb on + strand, within PP_1061at 1213.600 kb on + strand, within PP_1061at 1213.601 kb on - strand, within PP_1061at 1213.665 kb on + strand, within PP_1061at 1213.666 kb on - strand, within PP_1061at 1213.885 kb on + strand, within PP_1061at 1213.886 kb on - strand, within PP_1061at 1213.886 kb on - strand, within PP_1061at 1214.178 kb on + strand, within PP_1061at 1214.179 kb on - strand, within PP_1061at 1214.179 kb on - strand, within PP_1061at 1214.179 kb on - strand, within PP_1061at 1214.208 kb on + strand, within PP_1061at 1214.208 kb on + strand, within PP_1061at 1214.208 kb on + strand, within PP_1061at 1214.209 kb on - strand, within PP_1061at 1214.382 kb on - strand, within PP_1061at 1214.419 kb on + strand, within PP_1061at 1214.419 kb on + strand, within PP_1061at 1214.420 kb on - strand, within PP_1061at 1214.974 kb on + strand, within PP_1061at 1215.039 kb on - strand, within PP_1061at 1215.039 kb on - strand, within PP_1061at 1215.147 kb on + strand, within PP_1061at 1215.148 kb on - strand, within PP_1061at 1215.148 kb on - strand, within PP_1061at 1215.295 kb on - strand, within PP_1061at 1215.331 kb on + strand, within PP_1061at 1215.436 kb on + strand, within PP_1061at 1215.535 kb on + strand, within PP_1061at 1215.535 kb on + strand, within PP_1061at 1215.536 kb on - strand, within PP_1061at 1215.565 kb on + strand, within PP_1061at 1215.566 kb on - strand, within PP_1061at 1215.598 kb on + strand, within PP_1061at 1215.599 kb on - strand, within PP_1061at 1215.623 kb on - strand, within PP_1061at 1215.623 kb on - strand, within PP_1061at 1216.082 kb on + strand, within PP_1061at 1216.082 kb on + strand, within PP_1061at 1216.082 kb on + strand, within PP_1061at 1216.082 kb on + strand, within PP_1061at 1216.083 kb on - strand, within PP_1061at 1216.113 kb on + strand, within PP_1061at 1216.114 kb on - strand, within PP_1061at 1216.159 kb on + strand, within PP_1061at 1216.159 kb on + strand, within PP_1061at 1216.159 kb on + strand, within PP_1061at 1216.160 kb on - strand, within PP_1061at 1216.160 kb on - strand, within PP_1061at 1216.160 kb on - strand, within PP_1061at 1216.699 kb on + strandat 1216.699 kb on + strandat 1216.700 kb on - strandat 1216.968 kb on - strandat 1217.007 kb on + strandat 1217.225 kb on + strand, within PP_1062at 1217.225 kb on + strand, within PP_1062at 1217.226 kb on - strand, within PP_1062at 1217.287 kb on - strand, within PP_1062at 1217.565 kb on + strandat 1217.565 kb on + strandat 1217.566 kb on - strandat 1217.566 kb on - strandat 1217.566 kb on - strandat 1217.566 kb on - strandat 1217.601 kb on + strand, within PP_1063at 1217.602 kb on - strand, within PP_1063at 1217.602 kb on - strand, within PP_1063at 1217.602 kb on - strand, within PP_1063at 1217.649 kb on + strand, within PP_1063at 1217.649 kb on + strand, within PP_1063at 1217.649 kb on + strand, within PP_1063at 1217.650 kb on - strand, within PP_1063at 1217.664 kb on + strand, within PP_1063at 1217.749 kb on + strand, within PP_1063at 1217.750 kb on - strand, within PP_1063at 1217.827 kb on - strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.868 kb on + strand, within PP_1063at 1217.869 kb on - strand, within PP_1063at 1217.869 kb on - strand, within PP_1063at 1217.919 kb on + strand, within PP_1063at 1217.937 kb on + strand, within PP_1063at 1217.937 kb on + strand, within PP_1063at 1217.937 kb on + strand, within PP_1063at 1217.937 kb on + strandat 1217.937 kb on + strand, within PP_1063at 1217.938 kb on - strand, within PP_1063at 1217.938 kb on - strand, within PP_1063

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH8 and (C) Trisodium citrate
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1,211,699 + PP_1060 0.53 -3.1
1,211,699 + PP_1060 0.53 +0.7
1,211,875 - PP_1060 0.63 -4.0
1,212,006 + PP_1060 0.72 +0.0
1,212,111 + PP_1060 0.78 -0.2
1,212,111 + PP_1060 0.78 +0.0
1,212,111 + PP_1060 0.78 +0.1
1,212,112 - PP_1060 0.78 -0.0
1,212,112 - PP_1060 0.78 -0.7
1,212,112 - PP_1060 0.78 +0.7
1,212,112 - PP_1060 0.78 -2.0
1,212,112 - PP_1060 0.78 +1.7
1,212,113 + PP_1060 0.78 -3.6
1,212,113 + PP_1060 0.78 -3.1
1,212,114 - PP_1060 0.78 +1.5
1,212,114 - PP_1060 0.78 -0.1
1,212,114 - PP_1060 0.78 -0.5
1,212,114 - PP_1060 0.78 +2.3
1,212,114 - PP_1060 0.78 -0.5
1,212,168 + PP_1060 0.82 -2.0
1,212,265 - PP_1060 0.88 -0.8
1,212,289 - PP_1060 0.89 +0.7
1,212,466 + +2.3
1,212,466 + -1.9
1,212,467 - +1.7
1,212,467 - -0.8
1,212,549 + +0.1
1,212,670 + +0.5
1,212,745 + +1.2
1,212,746 - -1.2
1,212,746 - -1.9
1,212,752 - +1.8
1,212,927 + -0.1
1,212,927 + -1.5
1,212,927 + +0.1
1,212,928 - -1.5
1,212,928 - +1.3
1,212,928 - +0.1
1,212,928 - -1.3
1,212,930 + -0.1
1,212,931 - +1.2
1,213,018 + -0.4
1,213,050 + +0.1
1,213,051 - -0.2
1,213,051 - +0.8
1,213,229 + PP_1061 0.13 -3.3
1,213,229 + PP_1061 0.13 -0.9
1,213,425 + PP_1061 0.18 -0.4
1,213,425 + PP_1061 0.18 -1.3
1,213,426 - PP_1061 0.18 +1.4
1,213,600 + PP_1061 0.22 +0.5
1,213,600 + PP_1061 0.22 +0.7
1,213,601 - PP_1061 0.22 -0.9
1,213,665 + PP_1061 0.23 -0.9
1,213,666 - PP_1061 0.24 -0.6
1,213,885 + PP_1061 0.29 +0.2
1,213,886 - PP_1061 0.29 -2.7
1,213,886 - PP_1061 0.29 -3.9
1,214,178 + PP_1061 0.35 +1.0
1,214,179 - PP_1061 0.35 -3.1
1,214,179 - PP_1061 0.35 -0.5
1,214,179 - PP_1061 0.35 +0.2
1,214,208 + PP_1061 0.36 +0.3
1,214,208 + PP_1061 0.36 +0.3
1,214,208 + PP_1061 0.36 -1.9
1,214,209 - PP_1061 0.36 +0.4
1,214,382 - PP_1061 0.40 -2.2
1,214,419 + PP_1061 0.41 -4.0
1,214,419 + PP_1061 0.41 -0.2
1,214,420 - PP_1061 0.41 -2.6
1,214,974 + PP_1061 0.54 -0.5
1,215,039 - PP_1061 0.55 -0.7
1,215,039 - PP_1061 0.55 +0.2
1,215,147 + PP_1061 0.58 +0.5
1,215,148 - PP_1061 0.58 +0.5
1,215,148 - PP_1061 0.58 +0.8
1,215,295 - PP_1061 0.61 -0.3
1,215,331 + PP_1061 0.62 -0.4
1,215,436 + PP_1061 0.65 -0.7
1,215,535 + PP_1061 0.67 -0.7
1,215,535 + PP_1061 0.67 +0.9
1,215,536 - PP_1061 0.67 -0.5
1,215,565 + PP_1061 0.68 +0.6
1,215,566 - PP_1061 0.68 -1.9
1,215,598 + PP_1061 0.68 -0.6
1,215,599 - PP_1061 0.68 -1.6
1,215,623 - PP_1061 0.69 -0.8
1,215,623 - PP_1061 0.69 -3.3
1,216,082 + PP_1061 0.80 +0.8
1,216,082 + PP_1061 0.80 -0.1
1,216,082 + PP_1061 0.80 -0.9
1,216,082 + PP_1061 0.80 +0.5
1,216,083 - PP_1061 0.80 +1.0
1,216,113 + PP_1061 0.80 +0.5
1,216,114 - PP_1061 0.80 -4.5
1,216,159 + PP_1061 0.81 -1.4
1,216,159 + PP_1061 0.81 +2.4
1,216,159 + PP_1061 0.81 -3.1
1,216,160 - PP_1061 0.81 -1.4
1,216,160 - PP_1061 0.81 -0.6
1,216,160 - PP_1061 0.81 -0.2
1,216,699 + +0.8
1,216,699 + +1.1
1,216,700 - +0.0
1,216,968 - -0.7
1,217,007 + -1.6
1,217,225 + PP_1062 0.31 +1.2
1,217,225 + PP_1062 0.31 +0.7
1,217,226 - PP_1062 0.32 -0.5
1,217,287 - PP_1062 0.46 +0.4
1,217,565 + -1.0
1,217,565 + +0.7
1,217,566 - +0.0
1,217,566 - -3.2
1,217,566 - -0.9
1,217,566 - -1.7
1,217,601 + PP_1063 0.12 -0.2
1,217,602 - PP_1063 0.12 -0.3
1,217,602 - PP_1063 0.12 +0.4
1,217,602 - PP_1063 0.12 -2.2
1,217,649 + PP_1063 0.17 +0.2
1,217,649 + PP_1063 0.17 -0.4
1,217,649 + PP_1063 0.17 +0.5
1,217,650 - PP_1063 0.17 -4.0
1,217,664 + PP_1063 0.19 +0.4
1,217,749 + PP_1063 0.28 -1.2
1,217,750 - PP_1063 0.28 -3.2
1,217,827 - PP_1063 0.36 +1.0
1,217,868 + PP_1063 0.41 +1.1
1,217,868 + PP_1063 0.41 -0.4
1,217,868 + PP_1063 0.41 +1.5
1,217,868 + PP_1063 0.41 +0.2
1,217,868 + PP_1063 0.41 -0.2
1,217,868 + PP_1063 0.41 -0.4
1,217,868 + PP_1063 0.41 +1.2
1,217,868 + PP_1063 0.41 -1.1
1,217,869 - PP_1063 0.41 -2.1
1,217,869 - PP_1063 0.41 -3.8
1,217,919 + PP_1063 0.47 +1.2
1,217,937 + PP_1063 0.48 +1.9
1,217,937 + PP_1063 0.48 +1.0
1,217,937 + PP_1063 0.48 -0.1
1,217,937 + -1.1
1,217,937 + PP_1063 0.48 -1.9
1,217,938 - PP_1063 0.49 +0.1
1,217,938 - PP_1063 0.49 -0.1

Or see this region's nucleotide sequence