Strain Fitness in Dinoroseobacter shibae DFL-12 around Dshi_0406

Experiment: L-Alanine (N)

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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 ntDshi_0405 and Dshi_0406 overlap by 70 nucleotidesDshi_0406 and Dshi_0407 are separated by 262 nucleotidesDshi_0407 and Dshi_0408 are separated by 10 nucleotides Dshi_0405: Dshi_0405 - hypothetical protein (RefSeq), at 399,227 to 400,612 _0405 Dshi_0406: Dshi_0406 - hypothetical protein (RefSeq), at 400,543 to 401,841 _0406 Dshi_0407: Dshi_0407 - transcriptional regulator, XRE family (RefSeq), at 402,104 to 402,430 _0407 Dshi_0408: Dshi_0408 - protein of unknown function DUF955 (RefSeq), at 402,441 to 403,163 _0408 Position (kb) 400 401 402Strain fitness (log2 ratio) -3 -2 -1 0 1at 399.557 kb on + strand, within Dshi_0405at 399.618 kb on + strand, within Dshi_0405at 399.626 kb on - strand, within Dshi_0405at 399.697 kb on + strand, within Dshi_0405at 399.733 kb on - strand, within Dshi_0405at 399.733 kb on - strand, within Dshi_0405at 399.749 kb on - strand, within Dshi_0405at 399.749 kb on - strand, within Dshi_0405at 399.781 kb on + strand, within Dshi_0405at 399.781 kb on + strand, within Dshi_0405at 399.781 kb on + strand, within Dshi_0405at 399.789 kb on - strand, within Dshi_0405at 399.789 kb on - strand, within Dshi_0405at 399.789 kb on - strand, within Dshi_0405at 399.789 kb on - strand, within Dshi_0405at 399.825 kb on + strand, within Dshi_0405at 399.826 kb on + strand, within Dshi_0405at 399.911 kb on - strand, within Dshi_0405at 399.913 kb on + strand, within Dshi_0405at 399.913 kb on + strand, within Dshi_0405at 399.957 kb on - strand, within Dshi_0405at 399.969 kb on + strand, within Dshi_0405at 400.024 kb on + strand, within Dshi_0405at 400.024 kb on + strand, within Dshi_0405at 400.088 kb on - strand, within Dshi_0405at 400.090 kb on + strand, within Dshi_0405at 400.090 kb on + strand, within Dshi_0405at 400.090 kb on + strand, within Dshi_0405at 400.098 kb on - strand, within Dshi_0405at 400.148 kb on + strand, within Dshi_0405at 400.153 kb on + strand, within Dshi_0405at 400.165 kb on + strand, within Dshi_0405at 400.168 kb on - strand, within Dshi_0405at 400.168 kb on - strand, within Dshi_0405at 400.209 kb on - strand, within Dshi_0405at 400.220 kb on - strand, within Dshi_0405at 400.227 kb on + strand, within Dshi_0405at 400.260 kb on - strand, within Dshi_0405at 400.279 kb on + strand, within Dshi_0405at 400.284 kb on + strand, within Dshi_0405at 400.287 kb on - strandat 400.314 kb on - strand, within Dshi_0405at 400.330 kb on - strand, within Dshi_0405at 400.368 kb on - strand, within Dshi_0405at 400.384 kb on - strand, within Dshi_0405at 400.384 kb on - strand, within Dshi_0405at 400.395 kb on + strand, within Dshi_0405at 400.418 kb on - strand, within Dshi_0405at 400.456 kb on + strand, within Dshi_0405at 400.476 kb on + strandat 400.476 kb on + strandat 400.484 kb on - strandat 400.508 kb on + strandat 400.525 kb on + strandat 400.559 kb on - strandat 400.559 kb on - strandat 400.570 kb on - strandat 400.575 kb on + strandat 400.611 kb on - strandat 400.620 kb on + strandat 400.646 kb on + strandat 400.688 kb on - strand, within Dshi_0406at 400.741 kb on + strand, within Dshi_0406at 400.749 kb on - strand, within Dshi_0406at 400.832 kb on - strand, within Dshi_0406at 400.845 kb on + strand, within Dshi_0406at 400.846 kb on - strand, within Dshi_0406at 400.902 kb on + strand, within Dshi_0406at 400.917 kb on + strand, within Dshi_0406at 400.924 kb on + strand, within Dshi_0406at 401.004 kb on + strand, within Dshi_0406at 401.004 kb on + strand, within Dshi_0406at 401.012 kb on - strand, within Dshi_0406at 401.033 kb on + strand, within Dshi_0406at 401.073 kb on + strand, within Dshi_0406at 401.090 kb on - strand, within Dshi_0406at 401.107 kb on + strand, within Dshi_0406at 401.107 kb on + strand, within Dshi_0406at 401.115 kb on - strand, within Dshi_0406at 401.115 kb on - strand, within Dshi_0406at 401.115 kb on - strand, within Dshi_0406at 401.123 kb on - strand, within Dshi_0406at 401.125 kb on + strand, within Dshi_0406at 401.125 kb on + strand, within Dshi_0406at 401.125 kb on + strand, within Dshi_0406at 401.127 kb on + strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.133 kb on - strand, within Dshi_0406at 401.208 kb on + strand, within Dshi_0406at 401.222 kb on - strand, within Dshi_0406at 401.241 kb on + strand, within Dshi_0406at 401.241 kb on + strand, within Dshi_0406at 401.256 kb on + strand, within Dshi_0406at 401.272 kb on + strand, within Dshi_0406at 401.272 kb on + strand, within Dshi_0406at 401.272 kb on + strand, within Dshi_0406at 401.272 kb on + strand, within Dshi_0406at 401.272 kb on + strand, within Dshi_0406at 401.272 kb on + strand, within Dshi_0406at 401.272 kb on + strand, within Dshi_0406at 401.275 kb on - strand, within Dshi_0406at 401.280 kb on - strand, within Dshi_0406at 401.280 kb on - strand, within Dshi_0406at 401.280 kb on - strand, within Dshi_0406at 401.356 kb on + strand, within Dshi_0406at 401.374 kb on - strand, within Dshi_0406at 401.380 kb on + strand, within Dshi_0406at 401.392 kb on + strand, within Dshi_0406at 401.402 kb on + strand, within Dshi_0406at 401.402 kb on + strand, within Dshi_0406at 401.408 kb on + strand, within Dshi_0406at 401.410 kb on - strand, within Dshi_0406at 401.411 kb on - strand, within Dshi_0406at 401.414 kb on - strand, within Dshi_0406at 401.474 kb on - strand, within Dshi_0406at 401.477 kb on + strand, within Dshi_0406at 401.477 kb on + strand, within Dshi_0406at 401.485 kb on - strand, within Dshi_0406at 401.495 kb on - strand, within Dshi_0406at 401.520 kb on - strand, within Dshi_0406at 401.545 kb on + strand, within Dshi_0406at 401.577 kb on - strand, within Dshi_0406at 401.586 kb on - strand, within Dshi_0406at 401.657 kb on + strand, within Dshi_0406at 401.662 kb on + strand, within Dshi_0406at 401.662 kb on + strand, within Dshi_0406at 401.662 kb on + strand, within Dshi_0406at 401.670 kb on - strand, within Dshi_0406at 401.717 kb on + strandat 401.778 kb on + strandat 401.806 kb on + strandat 401.877 kb on - strandat 401.959 kb on + strandat 401.991 kb on - strandat 402.013 kb on + strandat 402.115 kb on + strandat 402.131 kb on - strandat 402.231 kb on + strand, within Dshi_0407at 402.289 kb on + strand, within Dshi_0407at 402.311 kb on + strand, within Dshi_0407at 402.321 kb on + strand, within Dshi_0407at 402.346 kb on - strand, within Dshi_0407at 402.566 kb on + strand, within Dshi_0408at 402.583 kb on + strand, within Dshi_0408at 402.621 kb on + strand, within Dshi_0408at 402.630 kb on - strand, within Dshi_0408at 402.678 kb on + strand, within Dshi_0408at 402.836 kb on + strand, within Dshi_0408

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Per-strain Table

Position Strand Gene LocusTag Fraction L-Alanine (N)
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399,557 + Dshi_0405 0.24 -0.4
399,618 + Dshi_0405 0.28 +0.0
399,626 - Dshi_0405 0.29 -0.5
399,697 + Dshi_0405 0.34 +1.0
399,733 - Dshi_0405 0.37 -0.6
399,733 - Dshi_0405 0.37 +0.1
399,749 - Dshi_0405 0.38 +0.2
399,749 - Dshi_0405 0.38 -0.4
399,781 + Dshi_0405 0.40 -0.3
399,781 + Dshi_0405 0.40 +0.4
399,781 + Dshi_0405 0.40 +0.1
399,789 - Dshi_0405 0.41 +0.4
399,789 - Dshi_0405 0.41 +0.2
399,789 - Dshi_0405 0.41 +1.1
399,789 - Dshi_0405 0.41 -0.1
399,825 + Dshi_0405 0.43 -0.1
399,826 + Dshi_0405 0.43 +0.3
399,911 - Dshi_0405 0.49 -0.3
399,913 + Dshi_0405 0.49 -0.3
399,913 + Dshi_0405 0.49 -1.0
399,957 - Dshi_0405 0.53 +1.2
399,969 + Dshi_0405 0.54 +0.4
400,024 + Dshi_0405 0.58 +0.4
400,024 + Dshi_0405 0.58 +0.5
400,088 - Dshi_0405 0.62 +0.1
400,090 + Dshi_0405 0.62 +0.0
400,090 + Dshi_0405 0.62 -0.3
400,090 + Dshi_0405 0.62 -0.2
400,098 - Dshi_0405 0.63 +0.2
400,148 + Dshi_0405 0.66 +0.6
400,153 + Dshi_0405 0.67 +0.1
400,165 + Dshi_0405 0.68 +0.2
400,168 - Dshi_0405 0.68 -0.8
400,168 - Dshi_0405 0.68 +0.3
400,209 - Dshi_0405 0.71 -0.5
400,220 - Dshi_0405 0.72 +1.7
400,227 + Dshi_0405 0.72 +0.1
400,260 - Dshi_0405 0.75 +0.8
400,279 + Dshi_0405 0.76 +0.5
400,284 + Dshi_0405 0.76 -0.2
400,287 - -0.8
400,314 - Dshi_0405 0.78 +0.9
400,330 - Dshi_0405 0.80 +0.2
400,368 - Dshi_0405 0.82 +0.2
400,384 - Dshi_0405 0.83 +1.1
400,384 - Dshi_0405 0.83 -0.2
400,395 + Dshi_0405 0.84 -3.1
400,418 - Dshi_0405 0.86 -0.3
400,456 + Dshi_0405 0.89 +0.8
400,476 + -0.9
400,476 + -0.3
400,484 - -0.9
400,508 + -0.5
400,525 + -0.8
400,559 - +0.7
400,559 - -1.0
400,570 - -2.6
400,575 + -0.2
400,611 - -0.2
400,620 + +0.1
400,646 + -0.2
400,688 - Dshi_0406 0.11 -0.2
400,741 + Dshi_0406 0.15 +0.4
400,749 - Dshi_0406 0.16 +0.5
400,832 - Dshi_0406 0.22 -0.3
400,845 + Dshi_0406 0.23 +0.8
400,846 - Dshi_0406 0.23 -0.2
400,902 + Dshi_0406 0.28 +0.6
400,917 + Dshi_0406 0.29 -0.2
400,924 + Dshi_0406 0.29 +0.2
401,004 + Dshi_0406 0.35 -0.8
401,004 + Dshi_0406 0.35 -0.6
401,012 - Dshi_0406 0.36 +0.1
401,033 + Dshi_0406 0.38 +1.2
401,073 + Dshi_0406 0.41 +0.7
401,090 - Dshi_0406 0.42 +0.5
401,107 + Dshi_0406 0.43 +0.2
401,107 + Dshi_0406 0.43 +0.8
401,115 - Dshi_0406 0.44 -0.3
401,115 - Dshi_0406 0.44 -1.3
401,115 - Dshi_0406 0.44 +0.5
401,123 - Dshi_0406 0.45 +0.2
401,125 + Dshi_0406 0.45 +0.8
401,125 + Dshi_0406 0.45 +0.4
401,125 + Dshi_0406 0.45 -0.1
401,127 + Dshi_0406 0.45 +0.4
401,133 - Dshi_0406 0.45 -2.3
401,133 - Dshi_0406 0.45 -0.5
401,133 - Dshi_0406 0.45 -0.1
401,133 - Dshi_0406 0.45 +0.1
401,133 - Dshi_0406 0.45 +0.0
401,133 - Dshi_0406 0.45 -0.2
401,133 - Dshi_0406 0.45 -0.2
401,133 - Dshi_0406 0.45 -0.3
401,133 - Dshi_0406 0.45 +0.1
401,208 + Dshi_0406 0.51 -0.6
401,222 - Dshi_0406 0.52 -0.1
401,241 + Dshi_0406 0.54 +0.1
401,241 + Dshi_0406 0.54 +1.0
401,256 + Dshi_0406 0.55 +0.1
401,272 + Dshi_0406 0.56 +1.4
401,272 + Dshi_0406 0.56 +0.5
401,272 + Dshi_0406 0.56 -1.3
401,272 + Dshi_0406 0.56 +0.0
401,272 + Dshi_0406 0.56 +0.4
401,272 + Dshi_0406 0.56 +0.7
401,272 + Dshi_0406 0.56 +0.7
401,275 - Dshi_0406 0.56 -0.6
401,280 - Dshi_0406 0.57 +0.2
401,280 - Dshi_0406 0.57 +0.1
401,280 - Dshi_0406 0.57 +1.2
401,356 + Dshi_0406 0.63 -0.3
401,374 - Dshi_0406 0.64 -0.7
401,380 + Dshi_0406 0.64 -2.5
401,392 + Dshi_0406 0.65 -0.4
401,402 + Dshi_0406 0.66 -0.4
401,402 + Dshi_0406 0.66 -1.6
401,408 + Dshi_0406 0.67 -1.4
401,410 - Dshi_0406 0.67 -0.1
401,411 - Dshi_0406 0.67 -0.7
401,414 - Dshi_0406 0.67 -0.3
401,474 - Dshi_0406 0.72 +0.3
401,477 + Dshi_0406 0.72 +0.3
401,477 + Dshi_0406 0.72 +0.9
401,485 - Dshi_0406 0.73 -0.2
401,495 - Dshi_0406 0.73 -0.4
401,520 - Dshi_0406 0.75 -1.1
401,545 + Dshi_0406 0.77 -0.2
401,577 - Dshi_0406 0.80 +1.1
401,586 - Dshi_0406 0.80 +0.2
401,657 + Dshi_0406 0.86 -1.3
401,662 + Dshi_0406 0.86 +1.5
401,662 + Dshi_0406 0.86 +0.5
401,662 + Dshi_0406 0.86 +1.0
401,670 - Dshi_0406 0.87 +0.4
401,717 + -0.3
401,778 + -0.2
401,806 + +0.3
401,877 - -1.6
401,959 + +0.3
401,991 - +1.3
402,013 + -0.4
402,115 + +0.3
402,131 - -0.8
402,231 + Dshi_0407 0.39 +0.1
402,289 + Dshi_0407 0.57 +0.9
402,311 + Dshi_0407 0.63 +0.3
402,321 + Dshi_0407 0.66 -0.6
402,346 - Dshi_0407 0.74 +0.9
402,566 + Dshi_0408 0.17 -1.2
402,583 + Dshi_0408 0.20 +0.7
402,621 + Dshi_0408 0.25 +0.3
402,630 - Dshi_0408 0.26 +0.8
402,678 + Dshi_0408 0.33 +0.4
402,836 + Dshi_0408 0.55 +0.1

Or see this region's nucleotide sequence