Strain Fitness in Variovorax sp. SCN45 around GFF3128

Experiment: Community=Locust bean gum; Passage=4

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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 ntGFF3126 and GFF3127 are separated by 149 nucleotidesGFF3127 and GFF3128 overlap by 4 nucleotidesGFF3128 and GFF3129 are separated by 26 nucleotidesGFF3129 and GFF3130 are separated by 24 nucleotidesGFF3130 and GFF3131 are separated by 4 nucleotides GFF3126 - no description, at 553,189 to 553,476 GFF3126 GFF3127 - no description, at 553,626 to 554,162 GFF3127 GFF3128 - T6SS PAAR-repeat protein / RhaS protein, at 554,159 to 558,616 GFF3128 GFF3129 - no description, at 558,643 to 559,086 GFF3129 GFF3130 - hypothetical protein, at 559,111 to 559,554 GFF3130 GFF3131 - VgrG protein, at 559,559 to 562,732 GFF3131 Position (kb) 554 555 556 557 558 559Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3at 553.279 kb on - strand, within GFF3126at 553.365 kb on - strand, within GFF3126at 553.502 kb on + strandat 553.502 kb on + strandat 553.503 kb on - strandat 553.503 kb on - strandat 553.503 kb on - strandat 553.503 kb on - strandat 553.503 kb on - strandat 553.503 kb on - strandat 553.503 kb on - strandat 553.503 kb on - strandat 553.618 kb on + strandat 553.657 kb on + strandat 553.657 kb on + strandat 553.657 kb on + strandat 553.658 kb on - strandat 553.658 kb on - strandat 553.658 kb on - strandat 553.678 kb on + strandat 553.678 kb on + strandat 553.679 kb on - strandat 553.679 kb on - strandat 553.679 kb on - strandat 553.680 kb on + strand, within GFF3127at 553.680 kb on + strand, within GFF3127at 553.680 kb on + strand, within GFF3127at 553.758 kb on + strand, within GFF3127at 553.758 kb on + strand, within GFF3127at 553.783 kb on + strand, within GFF3127at 553.843 kb on - strand, within GFF3127at 553.843 kb on - strand, within GFF3127at 553.876 kb on + strand, within GFF3127at 553.877 kb on - strand, within GFF3127at 553.916 kb on + strand, within GFF3127at 553.945 kb on - strand, within GFF3127at 554.300 kb on + strandat 554.300 kb on + strandat 554.300 kb on + strandat 554.301 kb on - strandat 554.302 kb on + strandat 554.347 kb on - strandat 554.444 kb on + strandat 554.444 kb on + strandat 554.445 kb on - strandat 554.506 kb on - strandat 554.551 kb on - strandat 554.551 kb on - strandat 554.622 kb on + strand, within GFF3128at 554.623 kb on - strand, within GFF3128at 554.623 kb on - strand, within GFF3128at 554.640 kb on + strand, within GFF3128at 554.640 kb on + strand, within GFF3128at 554.641 kb on - strand, within GFF3128at 554.641 kb on - strand, within GFF3128at 554.641 kb on - strand, within GFF3128at 554.641 kb on - strand, within GFF3128at 554.641 kb on - strand, within GFF3128at 554.668 kb on - strand, within GFF3128at 554.790 kb on + strand, within GFF3128at 554.791 kb on - strand, within GFF3128at 554.791 kb on - strand, within GFF3128at 554.949 kb on + strand, within GFF3128at 554.950 kb on - strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.955 kb on + strand, within GFF3128at 554.956 kb on - strand, within GFF3128at 554.956 kb on - strand, within GFF3128at 555.172 kb on + strand, within GFF3128at 555.216 kb on + strand, within GFF3128at 555.217 kb on - strand, within GFF3128at 555.217 kb on - strand, within GFF3128at 555.222 kb on + strand, within GFF3128at 555.223 kb on - strand, within GFF3128at 555.444 kb on + strand, within GFF3128at 555.444 kb on + strand, within GFF3128at 555.445 kb on - strand, within GFF3128at 555.450 kb on + strand, within GFF3128at 555.451 kb on - strand, within GFF3128at 555.451 kb on - strand, within GFF3128at 555.747 kb on + strand, within GFF3128at 555.747 kb on + strand, within GFF3128at 555.747 kb on + strand, within GFF3128at 555.747 kb on + strand, within GFF3128at 555.910 kb on - strand, within GFF3128at 556.009 kb on - strand, within GFF3128at 556.021 kb on - strand, within GFF3128at 556.572 kb on + strand, within GFF3128at 556.573 kb on - strand, within GFF3128at 556.573 kb on - strand, within GFF3128at 556.767 kb on + strand, within GFF3128at 556.767 kb on + strand, within GFF3128at 556.768 kb on - strand, within GFF3128at 556.768 kb on - strand, within GFF3128at 556.768 kb on - strand, within GFF3128at 556.768 kb on - strand, within GFF3128at 556.768 kb on - strand, within GFF3128at 556.887 kb on + strand, within GFF3128at 556.888 kb on - strand, within GFF3128at 556.950 kb on + strand, within GFF3128at 556.951 kb on - strand, within GFF3128at 556.951 kb on - strand, within GFF3128at 557.109 kb on + strand, within GFF3128at 557.110 kb on - strand, within GFF3128at 557.793 kb on + strand, within GFF3128at 557.793 kb on + strand, within GFF3128at 557.794 kb on - strand, within GFF3128at 557.794 kb on - strand, within GFF3128at 558.013 kb on - strand, within GFF3128at 558.287 kb on + strandat 558.288 kb on - strandat 559.079 kb on + strandat 559.112 kb on + strandat 559.113 kb on - strandat 559.202 kb on + strand, within GFF3130at 559.202 kb on + strand, within GFF3130at 559.576 kb on - strandat 559.603 kb on - strandat 559.611 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Community=Locust bean gum; Passage=4
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553,279 - GFF3126 0.31 -1.9
553,365 - GFF3126 0.61 -0.6
553,502 + -1.3
553,502 + -0.3
553,503 - -0.3
553,503 - +2.7
553,503 - +0.3
553,503 - +1.0
553,503 - -1.4
553,503 - -2.3
553,503 - -3.0
553,503 - -2.2
553,618 + -0.4
553,657 + -0.1
553,657 + -1.0
553,657 + +0.1
553,658 - +0.4
553,658 - -0.9
553,658 - -2.2
553,678 + -1.1
553,678 + -2.0
553,679 - +1.1
553,679 - -2.6
553,679 - -0.7
553,680 + GFF3127 0.10 +0.4
553,680 + GFF3127 0.10 -3.4
553,680 + GFF3127 0.10 +0.6
553,758 + GFF3127 0.25 -1.8
553,758 + GFF3127 0.25 +0.2
553,783 + GFF3127 0.29 +0.2
553,843 - GFF3127 0.40 +0.9
553,843 - GFF3127 0.40 -0.3
553,876 + GFF3127 0.47 +0.6
553,877 - GFF3127 0.47 +0.9
553,916 + GFF3127 0.54 -2.3
553,945 - GFF3127 0.59 -0.4
554,300 + -0.4
554,300 + -0.3
554,300 + -3.6
554,301 - +1.6
554,302 + +2.5
554,347 - -0.1
554,444 + +0.8
554,444 + -0.7
554,445 - +0.4
554,506 - +0.7
554,551 - +3.0
554,551 - +1.9
554,622 + GFF3128 0.10 -3.1
554,623 - GFF3128 0.10 -0.1
554,623 - GFF3128 0.10 +0.2
554,640 + GFF3128 0.11 +1.2
554,640 + GFF3128 0.11 +0.9
554,641 - GFF3128 0.11 -0.1
554,641 - GFF3128 0.11 +2.2
554,641 - GFF3128 0.11 +0.7
554,641 - GFF3128 0.11 -0.1
554,641 - GFF3128 0.11 -0.2
554,668 - GFF3128 0.11 +0.8
554,790 + GFF3128 0.14 +1.2
554,791 - GFF3128 0.14 -2.3
554,791 - GFF3128 0.14 +0.3
554,949 + GFF3128 0.18 +0.1
554,950 - GFF3128 0.18 -0.1
554,955 + GFF3128 0.18 -1.9
554,955 + GFF3128 0.18 +2.1
554,955 + GFF3128 0.18 -0.7
554,955 + GFF3128 0.18 -1.4
554,955 + GFF3128 0.18 -1.3
554,955 + GFF3128 0.18 +0.8
554,955 + GFF3128 0.18 -4.5
554,955 + GFF3128 0.18 +0.7
554,956 - GFF3128 0.18 +0.8
554,956 - GFF3128 0.18 -2.5
555,172 + GFF3128 0.23 -2.4
555,216 + GFF3128 0.24 +0.8
555,217 - GFF3128 0.24 -0.2
555,217 - GFF3128 0.24 +0.9
555,222 + GFF3128 0.24 -2.0
555,223 - GFF3128 0.24 -1.1
555,444 + GFF3128 0.29 +0.6
555,444 + GFF3128 0.29 -1.6
555,445 - GFF3128 0.29 -2.3
555,450 + GFF3128 0.29 +0.9
555,451 - GFF3128 0.29 +0.1
555,451 - GFF3128 0.29 -0.3
555,747 + GFF3128 0.36 -3.4
555,747 + GFF3128 0.36 +2.2
555,747 + GFF3128 0.36 -0.7
555,747 + GFF3128 0.36 +0.4
555,910 - GFF3128 0.39 -0.9
556,009 - GFF3128 0.41 +0.4
556,021 - GFF3128 0.42 -0.7
556,572 + GFF3128 0.54 -0.3
556,573 - GFF3128 0.54 +0.2
556,573 - GFF3128 0.54 -1.4
556,767 + GFF3128 0.59 +0.9
556,767 + GFF3128 0.59 +0.4
556,768 - GFF3128 0.59 -0.4
556,768 - GFF3128 0.59 -1.8
556,768 - GFF3128 0.59 +0.2
556,768 - GFF3128 0.59 -1.5
556,768 - GFF3128 0.59 -1.2
556,887 + GFF3128 0.61 +0.1
556,888 - GFF3128 0.61 -2.3
556,950 + GFF3128 0.63 -0.7
556,951 - GFF3128 0.63 -1.1
556,951 - GFF3128 0.63 +0.9
557,109 + GFF3128 0.66 +0.7
557,110 - GFF3128 0.66 -0.7
557,793 + GFF3128 0.82 -1.1
557,793 + GFF3128 0.82 -0.2
557,794 - GFF3128 0.82 +0.7
557,794 - GFF3128 0.82 -0.1
558,013 - GFF3128 0.86 -1.3
558,287 + -0.1
558,288 - -0.9
559,079 + -0.4
559,112 + +0.5
559,113 - -2.9
559,202 + GFF3130 0.20 -0.3
559,202 + GFF3130 0.20 -1.6
559,576 - +1.5
559,603 - -0.9
559,611 + +1.4

Or see this region's nucleotide sequence