Strain Fitness in Dinoroseobacter shibae DFL-12 around Dshi_3638

Experiment: m.b. Phosphomycin 0.005 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_3635 and Dshi_3636 are separated by 124 nucleotidesDshi_3636 and Dshi_3637 are separated by 168 nucleotidesDshi_3637 and Dshi_3638 are separated by 43 nucleotidesDshi_3638 and Dshi_3639 overlap by 4 nucleotidesDshi_3639 and Dshi_3640 overlap by 8 nucleotidesDshi_3640 and Dshi_3641 overlap by 11 nucleotides Dshi_3635: Dshi_3635 - transcriptional regulator, XRE family (RefSeq), at 37,936 to 38,193 _3635 Dshi_3636: Dshi_3636 - hypothetical protein (RefSeq), at 38,318 to 38,611 _3636 Dshi_3637: Dshi_3637 - hypothetical protein (RefSeq), at 38,780 to 39,133 _3637 Dshi_3638: Dshi_3638 - Lytic transglycosylase catalytic (RefSeq), at 39,177 to 39,797 _3638 Dshi_3639: Dshi_3639 - Conjugal transfer protein TrbC (RefSeq), at 39,794 to 40,087 _3639 Dshi_3640: Dshi_3640 - type IV secretory pathway VirB3 family protein (RefSeq), at 40,080 to 40,358 _3640 Dshi_3641: Dshi_3641 - CagE TrbE VirB component of type IV transporter system (RefSeq), at 40,348 to 42,723 _3641 Position (kb) 39 40Strain fitness (log2 ratio) -3 -2 -1 0 1at 38.277 kb on + strandat 38.286 kb on + strandat 38.288 kb on + strandat 38.294 kb on + strandat 38.294 kb on + strandat 38.296 kb on - strandat 38.298 kb on + strandat 38.302 kb on - strandat 38.302 kb on - strandat 38.345 kb on + strandat 38.358 kb on - strand, within Dshi_3636at 38.362 kb on + strand, within Dshi_3636at 38.364 kb on + strand, within Dshi_3636at 38.371 kb on + strand, within Dshi_3636at 38.380 kb on + strand, within Dshi_3636at 38.406 kb on - strand, within Dshi_3636at 38.406 kb on - strand, within Dshi_3636at 38.406 kb on - strand, within Dshi_3636at 38.417 kb on + strand, within Dshi_3636at 38.430 kb on - strand, within Dshi_3636at 38.432 kb on + strand, within Dshi_3636at 38.432 kb on + strand, within Dshi_3636at 38.432 kb on + strand, within Dshi_3636at 38.432 kb on + strand, within Dshi_3636at 38.432 kb on + strand, within Dshi_3636at 38.440 kb on + strand, within Dshi_3636at 38.456 kb on + strand, within Dshi_3636at 38.472 kb on - strand, within Dshi_3636at 38.474 kb on - strand, within Dshi_3636at 38.520 kb on + strand, within Dshi_3636at 38.537 kb on + strand, within Dshi_3636at 38.541 kb on + strand, within Dshi_3636at 38.570 kb on + strand, within Dshi_3636at 38.572 kb on - strand, within Dshi_3636at 38.588 kb on - strandat 38.590 kb on - strandat 38.590 kb on - strandat 38.613 kb on + strandat 38.615 kb on + strandat 38.623 kb on - strandat 38.636 kb on + strandat 38.644 kb on - strandat 38.651 kb on + strandat 38.651 kb on + strandat 38.741 kb on + strandat 38.741 kb on + strandat 38.741 kb on + strandat 38.783 kb on - strandat 38.785 kb on - strandat 38.913 kb on + strand, within Dshi_3637at 39.011 kb on + strand, within Dshi_3637at 39.028 kb on + strand, within Dshi_3637at 39.042 kb on + strand, within Dshi_3637at 39.047 kb on + strand, within Dshi_3637at 39.069 kb on + strand, within Dshi_3637at 39.077 kb on - strand, within Dshi_3637at 39.116 kb on - strandat 39.188 kb on - strandat 39.188 kb on - strandat 39.194 kb on - strandat 39.227 kb on + strandat 39.228 kb on - strandat 39.240 kb on - strand, within Dshi_3638at 39.256 kb on + strand, within Dshi_3638at 39.274 kb on - strand, within Dshi_3638at 39.308 kb on + strand, within Dshi_3638at 39.312 kb on + strand, within Dshi_3638at 39.320 kb on - strand, within Dshi_3638at 39.334 kb on + strand, within Dshi_3638at 39.345 kb on - strand, within Dshi_3638at 39.360 kb on + strand, within Dshi_3638at 39.360 kb on + strand, within Dshi_3638at 39.360 kb on + strand, within Dshi_3638at 39.368 kb on - strand, within Dshi_3638at 39.373 kb on - strand, within Dshi_3638at 39.373 kb on - strand, within Dshi_3638at 39.380 kb on + strand, within Dshi_3638at 39.386 kb on - strand, within Dshi_3638at 39.395 kb on + strand, within Dshi_3638at 39.402 kb on + strand, within Dshi_3638at 39.402 kb on + strand, within Dshi_3638at 39.407 kb on + strand, within Dshi_3638at 39.410 kb on - strand, within Dshi_3638at 39.410 kb on - strand, within Dshi_3638at 39.410 kb on - strand, within Dshi_3638at 39.426 kb on + strand, within Dshi_3638at 39.426 kb on + strand, within Dshi_3638at 39.426 kb on + strand, within Dshi_3638at 39.430 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.434 kb on - strand, within Dshi_3638at 39.444 kb on - strand, within Dshi_3638at 39.460 kb on + strand, within Dshi_3638at 39.473 kb on - strand, within Dshi_3638at 39.494 kb on - strand, within Dshi_3638at 39.507 kb on - strand, within Dshi_3638at 39.521 kb on - strand, within Dshi_3638at 39.554 kb on + strand, within Dshi_3638at 39.556 kb on - strand, within Dshi_3638at 39.556 kb on - strand, within Dshi_3638at 39.585 kb on - strand, within Dshi_3638at 39.600 kb on - strand, within Dshi_3638at 39.602 kb on - strand, within Dshi_3638at 39.668 kb on - strand, within Dshi_3638at 39.682 kb on + strand, within Dshi_3638at 39.697 kb on - strand, within Dshi_3638at 39.715 kb on + strand, within Dshi_3638at 39.716 kb on - strand, within Dshi_3638at 39.735 kb on + strand, within Dshi_3638at 39.735 kb on + strand, within Dshi_3638at 39.735 kb on + strand, within Dshi_3638at 39.742 kb on + strandat 39.743 kb on - strandat 39.743 kb on - strandat 39.743 kb on - strandat 39.743 kb on - strandat 39.743 kb on - strandat 39.748 kb on - strandat 39.779 kb on - strandat 39.811 kb on + strandat 39.848 kb on + strand, within Dshi_3639at 39.858 kb on + strand, within Dshi_3639at 39.858 kb on + strand, within Dshi_3639at 39.858 kb on + strand, within Dshi_3639at 39.866 kb on - strand, within Dshi_3639at 39.866 kb on - strand, within Dshi_3639at 39.866 kb on - strand, within Dshi_3639at 39.866 kb on - strand, within Dshi_3639at 39.866 kb on - strand, within Dshi_3639at 39.870 kb on + strand, within Dshi_3639at 39.882 kb on + strand, within Dshi_3639at 39.887 kb on + strand, within Dshi_3639at 39.887 kb on + strand, within Dshi_3639at 39.930 kb on + strand, within Dshi_3639at 39.941 kb on + strand, within Dshi_3639at 39.971 kb on + strand, within Dshi_3639at 39.993 kb on + strand, within Dshi_3639at 40.030 kb on - strand, within Dshi_3639at 40.030 kb on - strand, within Dshi_3639at 40.229 kb on + strand, within Dshi_3640at 40.229 kb on + strand, within Dshi_3640at 40.229 kb on + strand, within Dshi_3640at 40.229 kb on + strand, within Dshi_3640at 40.237 kb on - strand, within Dshi_3640at 40.237 kb on - strand, within Dshi_3640at 40.237 kb on - strand, within Dshi_3640at 40.237 kb on - strand, within Dshi_3640at 40.288 kb on + strand, within Dshi_3640at 40.296 kb on - strand, within Dshi_3640at 40.335 kb on + strandat 40.345 kb on + strandat 40.345 kb on + strandat 40.346 kb on - strandat 40.353 kb on - strandat 40.353 kb on - strandat 40.353 kb on - strandat 40.353 kb on - strandat 40.399 kb on - strandat 40.448 kb on - strandat 40.471 kb on + strandat 40.492 kb on + strandat 40.516 kb on + strandat 40.532 kb on + strandat 40.551 kb on + strandat 40.598 kb on - strand, within Dshi_3641at 40.617 kb on + strand, within Dshi_3641at 40.634 kb on - strand, within Dshi_3641at 40.634 kb on - strand, within Dshi_3641at 40.648 kb on - strand, within Dshi_3641at 40.655 kb on + strand, within Dshi_3641at 40.690 kb on - strand, within Dshi_3641at 40.690 kb on - strand, within Dshi_3641at 40.690 kb on - strand, within Dshi_3641at 40.700 kb on - strand, within Dshi_3641at 40.758 kb on - strand, within Dshi_3641

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Per-strain Table

Position Strand Gene LocusTag Fraction m.b. Phosphomycin 0.005 mg/ml
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38,277 + -0.4
38,286 + -0.7
38,288 + -0.1
38,294 + -0.2
38,294 + +0.3
38,296 - -0.5
38,298 + -0.7
38,302 - -0.4
38,302 - +0.3
38,345 + -0.4
38,358 - Dshi_3636 0.14 -0.2
38,362 + Dshi_3636 0.15 +0.9
38,364 + Dshi_3636 0.16 -0.8
38,371 + Dshi_3636 0.18 -0.0
38,380 + Dshi_3636 0.21 -0.3
38,406 - Dshi_3636 0.30 -0.3
38,406 - Dshi_3636 0.30 +0.1
38,406 - Dshi_3636 0.30 -0.5
38,417 + Dshi_3636 0.34 +0.4
38,430 - Dshi_3636 0.38 -1.1
38,432 + Dshi_3636 0.39 -0.7
38,432 + Dshi_3636 0.39 -0.3
38,432 + Dshi_3636 0.39 -0.2
38,432 + Dshi_3636 0.39 +0.1
38,432 + Dshi_3636 0.39 -0.1
38,440 + Dshi_3636 0.41 -0.1
38,456 + Dshi_3636 0.47 -0.6
38,472 - Dshi_3636 0.52 -0.6
38,474 - Dshi_3636 0.53 -0.7
38,520 + Dshi_3636 0.69 -1.0
38,537 + Dshi_3636 0.74 -1.6
38,541 + Dshi_3636 0.76 -0.4
38,570 + Dshi_3636 0.86 -0.9
38,572 - Dshi_3636 0.86 -0.3
38,588 - -0.4
38,590 - -0.9
38,590 - -1.4
38,613 + +0.1
38,615 + +0.1
38,623 - -0.4
38,636 + -3.4
38,644 - -0.4
38,651 + -1.9
38,651 + -1.9
38,741 + -1.8
38,741 + +0.3
38,741 + -1.0
38,783 - +0.1
38,785 - -0.9
38,913 + Dshi_3637 0.38 +0.9
39,011 + Dshi_3637 0.65 -0.4
39,028 + Dshi_3637 0.70 -0.8
39,042 + Dshi_3637 0.74 -0.8
39,047 + Dshi_3637 0.75 -0.1
39,069 + Dshi_3637 0.82 -0.9
39,077 - Dshi_3637 0.84 -0.8
39,116 - -1.6
39,188 - -0.4
39,188 - +0.3
39,194 - -0.9
39,227 + -1.2
39,228 - -0.2
39,240 - Dshi_3638 0.10 -0.4
39,256 + Dshi_3638 0.13 -0.6
39,274 - Dshi_3638 0.16 -0.9
39,308 + Dshi_3638 0.21 -0.4
39,312 + Dshi_3638 0.22 -0.8
39,320 - Dshi_3638 0.23 -0.7
39,334 + Dshi_3638 0.25 -0.8
39,345 - Dshi_3638 0.27 +0.2
39,360 + Dshi_3638 0.29 -0.0
39,360 + Dshi_3638 0.29 -0.3
39,360 + Dshi_3638 0.29 -0.5
39,368 - Dshi_3638 0.31 -1.5
39,373 - Dshi_3638 0.32 -0.4
39,373 - Dshi_3638 0.32 -0.8
39,380 + Dshi_3638 0.33 -1.1
39,386 - Dshi_3638 0.34 -0.3
39,395 + Dshi_3638 0.35 -0.7
39,402 + Dshi_3638 0.36 -0.8
39,402 + Dshi_3638 0.36 +0.4
39,407 + Dshi_3638 0.37 +0.3
39,410 - Dshi_3638 0.38 -0.2
39,410 - Dshi_3638 0.38 -0.0
39,410 - Dshi_3638 0.38 +0.4
39,426 + Dshi_3638 0.40 -0.4
39,426 + Dshi_3638 0.40 -1.3
39,426 + Dshi_3638 0.40 -0.8
39,430 - Dshi_3638 0.41 +0.6
39,434 - Dshi_3638 0.41 -0.4
39,434 - Dshi_3638 0.41 +0.3
39,434 - Dshi_3638 0.41 -0.2
39,434 - Dshi_3638 0.41 -0.3
39,434 - Dshi_3638 0.41 +0.5
39,434 - Dshi_3638 0.41 -0.7
39,434 - Dshi_3638 0.41 +0.9
39,434 - Dshi_3638 0.41 -0.2
39,434 - Dshi_3638 0.41 +0.2
39,444 - Dshi_3638 0.43 +0.2
39,460 + Dshi_3638 0.46 -0.4
39,473 - Dshi_3638 0.48 -0.4
39,494 - Dshi_3638 0.51 +0.3
39,507 - Dshi_3638 0.53 -0.4
39,521 - Dshi_3638 0.55 +0.3
39,554 + Dshi_3638 0.61 -0.1
39,556 - Dshi_3638 0.61 -1.2
39,556 - Dshi_3638 0.61 -0.9
39,585 - Dshi_3638 0.66 -0.5
39,600 - Dshi_3638 0.68 -0.4
39,602 - Dshi_3638 0.68 +0.2
39,668 - Dshi_3638 0.79 -0.6
39,682 + Dshi_3638 0.81 +0.0
39,697 - Dshi_3638 0.84 +0.4
39,715 + Dshi_3638 0.87 -1.2
39,716 - Dshi_3638 0.87 -0.6
39,735 + Dshi_3638 0.90 -0.5
39,735 + Dshi_3638 0.90 -0.0
39,735 + Dshi_3638 0.90 -0.4
39,742 + +0.0
39,743 - -0.8
39,743 - -0.3
39,743 - -0.8
39,743 - +0.4
39,743 - +0.2
39,748 - +0.2
39,779 - -0.4
39,811 + +0.0
39,848 + Dshi_3639 0.18 -0.0
39,858 + Dshi_3639 0.22 -0.4
39,858 + Dshi_3639 0.22 +0.6
39,858 + Dshi_3639 0.22 +0.6
39,866 - Dshi_3639 0.24 -0.6
39,866 - Dshi_3639 0.24 -0.2
39,866 - Dshi_3639 0.24 +0.4
39,866 - Dshi_3639 0.24 +0.1
39,866 - Dshi_3639 0.24 -0.8
39,870 + Dshi_3639 0.26 -0.4
39,882 + Dshi_3639 0.30 +0.8
39,887 + Dshi_3639 0.32 +0.0
39,887 + Dshi_3639 0.32 -0.3
39,930 + Dshi_3639 0.46 -1.6
39,941 + Dshi_3639 0.50 -0.8
39,971 + Dshi_3639 0.60 -0.5
39,993 + Dshi_3639 0.68 -0.5
40,030 - Dshi_3639 0.80 -0.5
40,030 - Dshi_3639 0.80 -0.4
40,229 + Dshi_3640 0.53 -1.7
40,229 + Dshi_3640 0.53 +0.8
40,229 + Dshi_3640 0.53 -0.4
40,229 + Dshi_3640 0.53 -0.5
40,237 - Dshi_3640 0.56 +0.1
40,237 - Dshi_3640 0.56 -0.3
40,237 - Dshi_3640 0.56 -0.2
40,237 - Dshi_3640 0.56 +0.1
40,288 + Dshi_3640 0.75 -0.2
40,296 - Dshi_3640 0.77 +0.2
40,335 + -0.4
40,345 + -0.1
40,345 + +0.2
40,346 - +0.0
40,353 - +0.4
40,353 - +0.1
40,353 - +1.1
40,353 - -1.0
40,399 - +0.2
40,448 - -0.5
40,471 + -0.5
40,492 + +0.4
40,516 + +0.1
40,532 + +0.4
40,551 + -0.7
40,598 - Dshi_3641 0.11 -0.1
40,617 + Dshi_3641 0.11 +0.3
40,634 - Dshi_3641 0.12 -0.6
40,634 - Dshi_3641 0.12 +0.3
40,648 - Dshi_3641 0.13 +0.3
40,655 + Dshi_3641 0.13 +0.4
40,690 - Dshi_3641 0.14 +0.5
40,690 - Dshi_3641 0.14 +0.7
40,690 - Dshi_3641 0.14 -0.4
40,700 - Dshi_3641 0.15 -0.3
40,758 - Dshi_3641 0.17 -0.0

Or see this region's nucleotide sequence