Strain Fitness in Dinoroseobacter shibae DFL-12 around Dshi_0454

Experiment: m.b. Vancomycin 0.064 mg/ml

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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_0452 and Dshi_0453 overlap by 4 nucleotidesDshi_0453 and Dshi_0454 overlap by 4 nucleotidesDshi_0454 and Dshi_0455 are separated by 342 nucleotides Dshi_0452: Dshi_0452 - coenzyme PQQ biosynthesis protein C (RefSeq), at 439,556 to 440,308 _0452 Dshi_0453: Dshi_0453 - coenzyme PQQ synthesis D (RefSeq), at 440,305 to 440,583 _0453 Dshi_0454: Dshi_0454 - coenzyme PQQ biosynthesis protein E (RefSeq), at 440,580 to 441,686 _0454 Dshi_0455: Dshi_0455 - hypothetical protein (RefSeq), at 442,029 to 442,946 _0455 Position (kb) 440 441 442Strain fitness (log2 ratio) -2 -1 0 1 2at 439.618 kb on - strandat 439.662 kb on + strand, within Dshi_0452at 439.662 kb on + strand, within Dshi_0452at 439.662 kb on + strand, within Dshi_0452at 439.662 kb on + strand, within Dshi_0452at 439.670 kb on - strand, within Dshi_0452at 439.680 kb on - strand, within Dshi_0452at 439.681 kb on - strand, within Dshi_0452at 439.708 kb on + strand, within Dshi_0452at 439.733 kb on + strand, within Dshi_0452at 439.755 kb on + strand, within Dshi_0452at 439.755 kb on + strand, within Dshi_0452at 439.763 kb on - strand, within Dshi_0452at 439.763 kb on - strand, within Dshi_0452at 439.771 kb on + strand, within Dshi_0452at 439.846 kb on + strand, within Dshi_0452at 439.927 kb on - strand, within Dshi_0452at 440.048 kb on + strand, within Dshi_0452at 440.109 kb on + strand, within Dshi_0452at 440.117 kb on - strand, within Dshi_0452at 440.126 kb on - strand, within Dshi_0452at 440.301 kb on - strandat 440.324 kb on + strandat 440.332 kb on - strandat 440.375 kb on + strand, within Dshi_0453at 440.416 kb on - strandat 440.464 kb on + strand, within Dshi_0453at 440.478 kb on + strand, within Dshi_0453at 440.481 kb on - strand, within Dshi_0453at 440.481 kb on - strand, within Dshi_0453at 440.621 kb on - strandat 440.626 kb on - strandat 440.658 kb on - strandat 440.675 kb on + strandat 440.706 kb on - strand, within Dshi_0454at 440.721 kb on - strand, within Dshi_0454at 440.822 kb on + strand, within Dshi_0454at 440.854 kb on + strand, within Dshi_0454at 440.914 kb on + strand, within Dshi_0454at 440.980 kb on + strand, within Dshi_0454at 440.999 kb on + strand, within Dshi_0454at 441.021 kb on - strand, within Dshi_0454at 441.033 kb on - strand, within Dshi_0454at 441.036 kb on + strand, within Dshi_0454at 441.052 kb on + strand, within Dshi_0454at 441.052 kb on + strand, within Dshi_0454at 441.055 kb on - strand, within Dshi_0454at 441.060 kb on - strand, within Dshi_0454at 441.123 kb on + strand, within Dshi_0454at 441.180 kb on - strand, within Dshi_0454at 441.224 kb on + strand, within Dshi_0454at 441.229 kb on + strand, within Dshi_0454at 441.277 kb on + strand, within Dshi_0454at 441.287 kb on + strand, within Dshi_0454at 441.295 kb on - strand, within Dshi_0454at 441.295 kb on - strand, within Dshi_0454at 441.295 kb on - strand, within Dshi_0454at 441.339 kb on + strand, within Dshi_0454at 441.339 kb on + strand, within Dshi_0454at 441.339 kb on + strand, within Dshi_0454at 441.342 kb on - strand, within Dshi_0454at 441.347 kb on - strand, within Dshi_0454at 441.347 kb on - strand, within Dshi_0454at 441.380 kb on - strand, within Dshi_0454at 441.420 kb on + strand, within Dshi_0454at 441.432 kb on + strand, within Dshi_0454at 441.463 kb on - strand, within Dshi_0454at 441.464 kb on - strand, within Dshi_0454at 441.464 kb on - strand, within Dshi_0454at 441.488 kb on + strand, within Dshi_0454at 441.496 kb on - strand, within Dshi_0454at 441.526 kb on - strand, within Dshi_0454at 441.536 kb on + strand, within Dshi_0454at 441.558 kb on + strand, within Dshi_0454at 441.558 kb on + strand, within Dshi_0454at 441.558 kb on + strand, within Dshi_0454at 441.566 kb on - strand, within Dshi_0454at 441.644 kb on - strandat 441.646 kb on + strandat 441.646 kb on + strandat 441.647 kb on + strandat 441.662 kb on - strandat 441.704 kb on - strandat 441.704 kb on - strandat 441.711 kb on + strandat 441.716 kb on + strandat 441.739 kb on + strandat 441.747 kb on - strandat 441.752 kb on - strandat 441.754 kb on + strandat 441.762 kb on - strandat 441.788 kb on + strandat 441.925 kb on - strandat 441.932 kb on + strandat 441.949 kb on + strandat 441.950 kb on - strandat 441.952 kb on - strandat 442.032 kb on - strandat 442.070 kb on + strandat 442.107 kb on - strandat 442.112 kb on + strandat 442.200 kb on + strand, within Dshi_0455at 442.204 kb on + strand, within Dshi_0455at 442.211 kb on + strand, within Dshi_0455at 442.212 kb on - strand, within Dshi_0455at 442.212 kb on - strand, within Dshi_0455at 442.212 kb on - strand, within Dshi_0455at 442.218 kb on - strand, within Dshi_0455at 442.233 kb on - strand, within Dshi_0455at 442.289 kb on - strand, within Dshi_0455at 442.315 kb on + strand, within Dshi_0455at 442.315 kb on + strand, within Dshi_0455at 442.323 kb on - strand, within Dshi_0455at 442.323 kb on - strand, within Dshi_0455at 442.323 kb on - strand, within Dshi_0455at 442.337 kb on + strand, within Dshi_0455at 442.345 kb on - strand, within Dshi_0455at 442.345 kb on - strand, within Dshi_0455at 442.345 kb on - strand, within Dshi_0455at 442.372 kb on + strand, within Dshi_0455at 442.393 kb on - strand, within Dshi_0455at 442.407 kb on + strand, within Dshi_0455at 442.434 kb on + strand, within Dshi_0455at 442.435 kb on + strand, within Dshi_0455at 442.442 kb on - strand, within Dshi_0455at 442.454 kb on - strand, within Dshi_0455at 442.469 kb on + strand, within Dshi_0455at 442.477 kb on - strand, within Dshi_0455at 442.485 kb on + strand, within Dshi_0455at 442.498 kb on - strand, within Dshi_0455at 442.509 kb on + strand, within Dshi_0455at 442.509 kb on + strand, within Dshi_0455at 442.509 kb on + strand, within Dshi_0455at 442.509 kb on + strand, within Dshi_0455at 442.517 kb on - strand, within Dshi_0455at 442.517 kb on - strand, within Dshi_0455at 442.522 kb on + strand, within Dshi_0455at 442.553 kb on + strand, within Dshi_0455at 442.561 kb on - strand, within Dshi_0455at 442.577 kb on + strand, within Dshi_0455at 442.582 kb on - strand, within Dshi_0455at 442.601 kb on + strand, within Dshi_0455at 442.631 kb on + strand, within Dshi_0455at 442.640 kb on - strand, within Dshi_0455at 442.653 kb on + strand, within Dshi_0455at 442.653 kb on + strand, within Dshi_0455at 442.661 kb on - strand, within Dshi_0455at 442.664 kb on + strand, within Dshi_0455at 442.677 kb on - strand, within Dshi_0455at 442.680 kb on + strand, within Dshi_0455

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Per-strain Table

Position Strand Gene LocusTag Fraction m.b. Vancomycin 0.064 mg/ml
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439,618 - +2.7
439,662 + Dshi_0452 0.14 +0.6
439,662 + Dshi_0452 0.14 +0.5
439,662 + Dshi_0452 0.14 -1.0
439,662 + Dshi_0452 0.14 +1.4
439,670 - Dshi_0452 0.15 -0.5
439,680 - Dshi_0452 0.16 -0.6
439,681 - Dshi_0452 0.17 -1.6
439,708 + Dshi_0452 0.20 +0.0
439,733 + Dshi_0452 0.24 +0.4
439,755 + Dshi_0452 0.26 +0.9
439,755 + Dshi_0452 0.26 +0.2
439,763 - Dshi_0452 0.27 +0.4
439,763 - Dshi_0452 0.27 +0.2
439,771 + Dshi_0452 0.29 -0.2
439,846 + Dshi_0452 0.39 -1.0
439,927 - Dshi_0452 0.49 -0.2
440,048 + Dshi_0452 0.65 +0.2
440,109 + Dshi_0452 0.73 -0.1
440,117 - Dshi_0452 0.75 +0.5
440,126 - Dshi_0452 0.76 +0.2
440,301 - +0.4
440,324 + +0.6
440,332 - -0.0
440,375 + Dshi_0453 0.25 -0.1
440,416 - -0.6
440,464 + Dshi_0453 0.57 -0.5
440,478 + Dshi_0453 0.62 +0.4
440,481 - Dshi_0453 0.63 -0.3
440,481 - Dshi_0453 0.63 +0.2
440,621 - -0.2
440,626 - -0.4
440,658 - -0.8
440,675 + -1.1
440,706 - Dshi_0454 0.11 -0.6
440,721 - Dshi_0454 0.13 +0.4
440,822 + Dshi_0454 0.22 -0.9
440,854 + Dshi_0454 0.25 -0.2
440,914 + Dshi_0454 0.30 +0.2
440,980 + Dshi_0454 0.36 -0.9
440,999 + Dshi_0454 0.38 +1.4
441,021 - Dshi_0454 0.40 +0.5
441,033 - Dshi_0454 0.41 -0.6
441,036 + Dshi_0454 0.41 -1.2
441,052 + Dshi_0454 0.43 +0.2
441,052 + Dshi_0454 0.43 -0.0
441,055 - Dshi_0454 0.43 -0.6
441,060 - Dshi_0454 0.43 -0.8
441,123 + Dshi_0454 0.49 +0.0
441,180 - Dshi_0454 0.54 +1.1
441,224 + Dshi_0454 0.58 -2.4
441,229 + Dshi_0454 0.59 -0.8
441,277 + Dshi_0454 0.63 -1.0
441,287 + Dshi_0454 0.64 +0.6
441,295 - Dshi_0454 0.65 +0.2
441,295 - Dshi_0454 0.65 +0.0
441,295 - Dshi_0454 0.65 +1.4
441,339 + Dshi_0454 0.69 -0.1
441,339 + Dshi_0454 0.69 -0.8
441,339 + Dshi_0454 0.69 -0.4
441,342 - Dshi_0454 0.69 -2.0
441,347 - Dshi_0454 0.69 -1.4
441,347 - Dshi_0454 0.69 -2.0
441,380 - Dshi_0454 0.72 -0.2
441,420 + Dshi_0454 0.76 +1.0
441,432 + Dshi_0454 0.77 -0.1
441,463 - Dshi_0454 0.80 -0.2
441,464 - Dshi_0454 0.80 +1.4
441,464 - Dshi_0454 0.80 -0.5
441,488 + Dshi_0454 0.82 -0.0
441,496 - Dshi_0454 0.83 +0.1
441,526 - Dshi_0454 0.85 -0.1
441,536 + Dshi_0454 0.86 -0.2
441,558 + Dshi_0454 0.88 +0.1
441,558 + Dshi_0454 0.88 -0.4
441,558 + Dshi_0454 0.88 -0.2
441,566 - Dshi_0454 0.89 +0.0
441,644 - +0.4
441,646 + -0.6
441,646 + +0.3
441,647 + -0.0
441,662 - -0.3
441,704 - +0.3
441,704 - -0.3
441,711 + +0.6
441,716 + -0.4
441,739 + +0.4
441,747 - +0.2
441,752 - -0.5
441,754 + +0.1
441,762 - +0.0
441,788 + -0.0
441,925 - +0.0
441,932 + -0.4
441,949 + -0.8
441,950 - -1.4
441,952 - +1.6
442,032 - -0.6
442,070 + +0.2
442,107 - +0.1
442,112 + -0.1
442,200 + Dshi_0455 0.19 +0.8
442,204 + Dshi_0455 0.19 -2.3
442,211 + Dshi_0455 0.20 -0.1
442,212 - Dshi_0455 0.20 +0.2
442,212 - Dshi_0455 0.20 +1.3
442,212 - Dshi_0455 0.20 +0.5
442,218 - Dshi_0455 0.21 +0.0
442,233 - Dshi_0455 0.22 +0.8
442,289 - Dshi_0455 0.28 -1.1
442,315 + Dshi_0455 0.31 -0.2
442,315 + Dshi_0455 0.31 +0.1
442,323 - Dshi_0455 0.32 +0.4
442,323 - Dshi_0455 0.32 +1.0
442,323 - Dshi_0455 0.32 -0.6
442,337 + Dshi_0455 0.34 -0.0
442,345 - Dshi_0455 0.34 -2.3
442,345 - Dshi_0455 0.34 -0.2
442,345 - Dshi_0455 0.34 -1.0
442,372 + Dshi_0455 0.37 -0.1
442,393 - Dshi_0455 0.40 -0.5
442,407 + Dshi_0455 0.41 +0.4
442,434 + Dshi_0455 0.44 -1.4
442,435 + Dshi_0455 0.44 +0.9
442,442 - Dshi_0455 0.45 +0.1
442,454 - Dshi_0455 0.46 -1.1
442,469 + Dshi_0455 0.48 +0.7
442,477 - Dshi_0455 0.49 +0.1
442,485 + Dshi_0455 0.50 -1.0
442,498 - Dshi_0455 0.51 -0.1
442,509 + Dshi_0455 0.52 -0.0
442,509 + Dshi_0455 0.52 -0.6
442,509 + Dshi_0455 0.52 +0.4
442,509 + Dshi_0455 0.52 -0.3
442,517 - Dshi_0455 0.53 +0.7
442,517 - Dshi_0455 0.53 -0.4
442,522 + Dshi_0455 0.54 +0.5
442,553 + Dshi_0455 0.57 +0.1
442,561 - Dshi_0455 0.58 -0.2
442,577 + Dshi_0455 0.60 -0.4
442,582 - Dshi_0455 0.60 -0.7
442,601 + Dshi_0455 0.62 +0.0
442,631 + Dshi_0455 0.66 +0.2
442,640 - Dshi_0455 0.67 -0.2
442,653 + Dshi_0455 0.68 +0.9
442,653 + Dshi_0455 0.68 -0.4
442,661 - Dshi_0455 0.69 -0.3
442,664 + Dshi_0455 0.69 -0.8
442,677 - Dshi_0455 0.71 +0.0
442,680 + Dshi_0455 0.71 -0.2

Or see this region's nucleotide sequence