Strain Fitness in Pseudomonas putida KT2440 around PP_1318

Experiment: Growth at pH6 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_1316 and PP_1317 are separated by 262 nucleotidesPP_1317 and PP_1318 overlap by 1 nucleotidesPP_1318 and PP_1319 overlap by 1 nucleotidesPP_1319 and PP_1320 are separated by 116 nucleotides PP_1316: PP_1316 - 30S ribosomal protein S9, at 1,503,641 to 1,504,033 _1316 PP_1317: PP_1317 - Ubiquinol-cytochrome c reductase iron-sulfur subunit, at 1,504,296 to 1,504,889 _1317 PP_1318: PP_1318 - Cytochrome b, at 1,504,889 to 1,506,100 _1318 PP_1319: PP_1319 - Ubiquinol--cytochrome c reductase, cytochrome c1, at 1,506,100 to 1,506,879 _1319 PP_1320: PP_1320 - stringent starvation protein A, at 1,506,996 to 1,507,619 _1320 Position (kb) 1504 1505 1506 1507Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 1504.099 kb on - strandat 1504.131 kb on + strandat 1504.131 kb on + strandat 1504.137 kb on + strandat 1504.137 kb on + strandat 1504.138 kb on - strandat 1504.138 kb on - strandat 1504.175 kb on + strandat 1504.208 kb on - strandat 1504.208 kb on - strandat 1504.245 kb on + strandat 1504.245 kb on + strandat 1504.245 kb on + strandat 1504.245 kb on + strandat 1504.245 kb on + strandat 1504.246 kb on - strandat 1504.246 kb on - strandat 1504.246 kb on - strandat 1504.511 kb on - strand, within PP_1317at 1504.608 kb on + strand, within PP_1317at 1504.609 kb on - strand, within PP_1317at 1504.609 kb on - strand, within PP_1317at 1504.735 kb on + strand, within PP_1317at 1504.735 kb on + strand, within PP_1317at 1504.736 kb on - strand, within PP_1317at 1504.736 kb on - strand, within PP_1317at 1504.743 kb on + strand, within PP_1317at 1504.770 kb on + strand, within PP_1317at 1504.791 kb on + strand, within PP_1317at 1504.791 kb on + strand, within PP_1317at 1504.792 kb on - strand, within PP_1317at 1504.839 kb on + strandat 1504.839 kb on + strandat 1504.840 kb on - strandat 1504.961 kb on + strandat 1504.961 kb on + strandat 1504.961 kb on + strandat 1504.961 kb on + strandat 1504.962 kb on - strandat 1504.962 kb on - strandat 1504.962 kb on - strandat 1504.964 kb on + strandat 1504.964 kb on + strandat 1504.964 kb on + strandat 1504.965 kb on - strandat 1505.102 kb on + strand, within PP_1318at 1505.103 kb on - strand, within PP_1318at 1505.124 kb on - strand, within PP_1318at 1505.184 kb on - strand, within PP_1318at 1505.210 kb on + strand, within PP_1318at 1505.211 kb on - strand, within PP_1318at 1505.264 kb on + strand, within PP_1318at 1505.297 kb on + strand, within PP_1318at 1505.297 kb on + strand, within PP_1318at 1505.324 kb on + strand, within PP_1318at 1505.324 kb on + strand, within PP_1318at 1505.325 kb on - strand, within PP_1318at 1505.408 kb on + strand, within PP_1318at 1505.408 kb on + strand, within PP_1318at 1505.409 kb on - strand, within PP_1318at 1505.587 kb on + strand, within PP_1318at 1505.603 kb on + strand, within PP_1318at 1505.603 kb on + strand, within PP_1318at 1505.604 kb on - strand, within PP_1318at 1505.606 kb on + strand, within PP_1318at 1505.607 kb on - strand, within PP_1318at 1505.607 kb on - strand, within PP_1318at 1505.690 kb on + strand, within PP_1318at 1505.690 kb on + strand, within PP_1318at 1505.778 kb on - strand, within PP_1318at 1505.778 kb on - strand, within PP_1318at 1505.894 kb on + strand, within PP_1318at 1505.894 kb on + strand, within PP_1318at 1505.895 kb on - strand, within PP_1318at 1505.968 kb on - strand, within PP_1318at 1505.989 kb on + strandat 1506.006 kb on + strandat 1506.007 kb on - strandat 1506.007 kb on - strandat 1506.020 kb on + strandat 1506.020 kb on + strandat 1506.021 kb on - strandat 1506.021 kb on - strandat 1506.021 kb on - strandat 1506.021 kb on - strandat 1506.050 kb on + strandat 1506.050 kb on + strandat 1506.051 kb on - strandat 1506.051 kb on - strandat 1506.051 kb on - strandat 1506.051 kb on - strandat 1506.052 kb on + strandat 1506.052 kb on + strandat 1506.052 kb on + strandat 1506.052 kb on + strandat 1506.052 kb on + strandat 1506.053 kb on - strandat 1506.053 kb on - strandat 1506.053 kb on - strandat 1506.053 kb on - strandat 1506.119 kb on + strandat 1506.231 kb on + strand, within PP_1319at 1506.244 kb on + strand, within PP_1319at 1506.245 kb on - strand, within PP_1319at 1506.245 kb on - strand, within PP_1319at 1506.281 kb on - strand, within PP_1319at 1506.466 kb on + strand, within PP_1319at 1506.466 kb on + strand, within PP_1319at 1506.466 kb on + strand, within PP_1319at 1506.467 kb on - strand, within PP_1319at 1506.467 kb on - strand, within PP_1319at 1506.472 kb on + strand, within PP_1319at 1506.472 kb on + strand, within PP_1319at 1506.472 kb on + strand, within PP_1319at 1506.487 kb on + strand, within PP_1319at 1506.488 kb on - strand, within PP_1319at 1506.508 kb on + strand, within PP_1319at 1506.527 kb on + strand, within PP_1319at 1506.527 kb on + strand, within PP_1319at 1506.574 kb on - strand, within PP_1319at 1506.574 kb on - strand, within PP_1319at 1506.758 kb on - strand, within PP_1319at 1506.802 kb on + strandat 1506.802 kb on + strandat 1506.802 kb on + strandat 1506.802 kb on + strandat 1506.802 kb on + strandat 1506.802 kb on + strandat 1506.802 kb on + strandat 1506.803 kb on - strandat 1506.803 kb on - strandat 1506.803 kb on - strandat 1506.803 kb on - strandat 1506.803 kb on - strandat 1506.814 kb on + strandat 1506.815 kb on - strandat 1506.815 kb on - strandat 1506.815 kb on - strandat 1506.815 kb on - strandat 1506.815 kb on - strandat 1506.842 kb on - strandat 1506.860 kb on - strandat 1506.860 kb on - strandat 1506.860 kb on - strandat 1506.888 kb on + strandat 1506.888 kb on + strandat 1506.922 kb on + strandat 1506.922 kb on + strandat 1506.922 kb on + strandat 1506.922 kb on + strandat 1506.928 kb on + strandat 1506.928 kb on + strandat 1506.929 kb on - strandat 1506.929 kb on - strandat 1506.994 kb on - strandat 1507.015 kb on + strandat 1507.023 kb on + strandat 1507.024 kb on - strandat 1507.024 kb on - strandat 1507.044 kb on + strandat 1507.044 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Growth at pH6 and (C) Trisodium citrate
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1,504,099 - -1.0
1,504,131 + +1.2
1,504,131 + -0.5
1,504,137 + -0.7
1,504,137 + +1.3
1,504,138 - +1.6
1,504,138 - +1.1
1,504,175 + +1.3
1,504,208 - -1.0
1,504,208 - -2.2
1,504,245 + -2.2
1,504,245 + +1.3
1,504,245 + +0.3
1,504,245 + -0.1
1,504,245 + +0.7
1,504,246 - -2.5
1,504,246 - +1.0
1,504,246 - -2.1
1,504,511 - PP_1317 0.36 -0.9
1,504,608 + PP_1317 0.53 -1.0
1,504,609 - PP_1317 0.53 +0.9
1,504,609 - PP_1317 0.53 -1.9
1,504,735 + PP_1317 0.74 +0.6
1,504,735 + PP_1317 0.74 -0.5
1,504,736 - PP_1317 0.74 +0.1
1,504,736 - PP_1317 0.74 +0.6
1,504,743 + PP_1317 0.75 -0.3
1,504,770 + PP_1317 0.80 -1.2
1,504,791 + PP_1317 0.83 +0.8
1,504,791 + PP_1317 0.83 -1.7
1,504,792 - PP_1317 0.84 -0.5
1,504,839 + +1.9
1,504,839 + -0.1
1,504,840 - -1.9
1,504,961 + +1.3
1,504,961 + -1.1
1,504,961 + +0.6
1,504,961 + +3.5
1,504,962 - +1.8
1,504,962 - +0.1
1,504,962 - +1.0
1,504,964 + +0.8
1,504,964 + +0.9
1,504,964 + -0.4
1,504,965 - +0.6
1,505,102 + PP_1318 0.18 +1.7
1,505,103 - PP_1318 0.18 -2.5
1,505,124 - PP_1318 0.19 -0.7
1,505,184 - PP_1318 0.24 +0.6
1,505,210 + PP_1318 0.26 -1.2
1,505,211 - PP_1318 0.27 +0.5
1,505,264 + PP_1318 0.31 -0.1
1,505,297 + PP_1318 0.34 +0.1
1,505,297 + PP_1318 0.34 -2.3
1,505,324 + PP_1318 0.36 -0.7
1,505,324 + PP_1318 0.36 +0.4
1,505,325 - PP_1318 0.36 -1.7
1,505,408 + PP_1318 0.43 -0.7
1,505,408 + PP_1318 0.43 +1.2
1,505,409 - PP_1318 0.43 +1.4
1,505,587 + PP_1318 0.58 +1.5
1,505,603 + PP_1318 0.59 +0.7
1,505,603 + PP_1318 0.59 -0.9
1,505,604 - PP_1318 0.59 +1.4
1,505,606 + PP_1318 0.59 +2.1
1,505,607 - PP_1318 0.59 -1.6
1,505,607 - PP_1318 0.59 -0.9
1,505,690 + PP_1318 0.66 -2.2
1,505,690 + PP_1318 0.66 -0.7
1,505,778 - PP_1318 0.73 -1.4
1,505,778 - PP_1318 0.73 -2.2
1,505,894 + PP_1318 0.83 +0.6
1,505,894 + PP_1318 0.83 -1.5
1,505,895 - PP_1318 0.83 -1.6
1,505,968 - PP_1318 0.89 +0.7
1,505,989 + +0.6
1,506,006 + -2.0
1,506,007 - +2.7
1,506,007 - +1.8
1,506,020 + +1.5
1,506,020 + +1.5
1,506,021 - +0.5
1,506,021 - +1.7
1,506,021 - -1.8
1,506,021 - +0.9
1,506,050 + -1.2
1,506,050 + -2.5
1,506,051 - +1.5
1,506,051 - -1.0
1,506,051 - +0.8
1,506,051 - +1.5
1,506,052 + -2.8
1,506,052 + -0.6
1,506,052 + +0.3
1,506,052 + +0.3
1,506,052 + -1.9
1,506,053 - +1.8
1,506,053 - +0.8
1,506,053 - +0.5
1,506,053 - -1.9
1,506,119 + -2.0
1,506,231 + PP_1319 0.17 -1.6
1,506,244 + PP_1319 0.18 -0.3
1,506,245 - PP_1319 0.19 -1.7
1,506,245 - PP_1319 0.19 -1.7
1,506,281 - PP_1319 0.23 +1.6
1,506,466 + PP_1319 0.47 -0.4
1,506,466 + PP_1319 0.47 -0.5
1,506,466 + PP_1319 0.47 +0.9
1,506,467 - PP_1319 0.47 -0.9
1,506,467 - PP_1319 0.47 -1.0
1,506,472 + PP_1319 0.48 +1.5
1,506,472 + PP_1319 0.48 -0.3
1,506,472 + PP_1319 0.48 +1.1
1,506,487 + PP_1319 0.50 -0.7
1,506,488 - PP_1319 0.50 +0.8
1,506,508 + PP_1319 0.52 +0.9
1,506,527 + PP_1319 0.55 -0.1
1,506,527 + PP_1319 0.55 +0.9
1,506,574 - PP_1319 0.61 -0.4
1,506,574 - PP_1319 0.61 +1.3
1,506,758 - PP_1319 0.84 +1.4
1,506,802 + +2.5
1,506,802 + +0.8
1,506,802 + -1.9
1,506,802 + -2.1
1,506,802 + -0.5
1,506,802 + +2.0
1,506,802 + -1.7
1,506,803 - -0.7
1,506,803 - +0.5
1,506,803 - +0.1
1,506,803 - -2.8
1,506,803 - -2.3
1,506,814 + +1.2
1,506,815 - +1.3
1,506,815 - -2.0
1,506,815 - +0.2
1,506,815 - +0.2
1,506,815 - -2.2
1,506,842 - -1.1
1,506,860 - -2.3
1,506,860 - -1.9
1,506,860 - -2.3
1,506,888 + +1.3
1,506,888 + -1.3
1,506,922 + -2.5
1,506,922 + -3.6
1,506,922 + +0.8
1,506,922 + +0.8
1,506,928 + +2.0
1,506,928 + -3.2
1,506,929 - +0.5
1,506,929 - -0.1
1,506,994 - -0.9
1,507,015 + +0.0
1,507,023 + -0.3
1,507,024 - +0.3
1,507,024 - +0.9
1,507,044 + +0.6
1,507,044 + -2.7

Or see this region's nucleotide sequence