Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS13065

Experiment: Beta-Lactose 10 mM (C)

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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 ntHMPREF1058_RS13075 and HMPREF1058_RS13070 are separated by 13 nucleotidesHMPREF1058_RS13070 and HMPREF1058_RS13065 are separated by 135 nucleotidesHMPREF1058_RS13065 and HMPREF1058_RS13060 are separated by 63 nucleotides HMPREF1058_RS13075: HMPREF1058_RS13075 - hypothetical protein, at 1,598,277 to 1,599,110 _RS13075 HMPREF1058_RS13070: HMPREF1058_RS13070 - LamG domain-containing protein, at 1,599,124 to 1,599,918 _RS13070 HMPREF1058_RS13065: HMPREF1058_RS13065 - hypothetical protein, at 1,600,054 to 1,603,353 _RS13065 HMPREF1058_RS13060: HMPREF1058_RS13060 - helix-turn-helix transcriptional regulator, at 1,603,417 to 1,603,887 _RS13060 Position (kb) 1600 1601 1602 1603 1604Strain fitness (log2 ratio) -2 -1 0 1 2 3 4at 1599.077 kb on + strandat 1599.077 kb on + strandat 1599.077 kb on + strandat 1599.078 kb on - strandat 1599.146 kb on + strandat 1599.186 kb on - strandat 1599.189 kb on + strandat 1599.230 kb on + strand, within HMPREF1058_RS13070at 1599.230 kb on + strand, within HMPREF1058_RS13070at 1599.284 kb on + strand, within HMPREF1058_RS13070at 1599.285 kb on - strand, within HMPREF1058_RS13070at 1599.285 kb on - strand, within HMPREF1058_RS13070at 1599.285 kb on - strand, within HMPREF1058_RS13070at 1599.364 kb on - strand, within HMPREF1058_RS13070at 1599.381 kb on + strand, within HMPREF1058_RS13070at 1599.382 kb on - strand, within HMPREF1058_RS13070at 1599.382 kb on - strand, within HMPREF1058_RS13070at 1599.486 kb on + strand, within HMPREF1058_RS13070at 1599.486 kb on + strand, within HMPREF1058_RS13070at 1599.506 kb on + strand, within HMPREF1058_RS13070at 1599.530 kb on - strand, within HMPREF1058_RS13070at 1599.538 kb on + strand, within HMPREF1058_RS13070at 1599.584 kb on + strand, within HMPREF1058_RS13070at 1599.613 kb on + strand, within HMPREF1058_RS13070at 1599.613 kb on + strand, within HMPREF1058_RS13070at 1599.614 kb on - strand, within HMPREF1058_RS13070at 1599.614 kb on - strand, within HMPREF1058_RS13070at 1599.622 kb on - strand, within HMPREF1058_RS13070at 1599.623 kb on + strand, within HMPREF1058_RS13070at 1599.624 kb on - strand, within HMPREF1058_RS13070at 1599.759 kb on + strand, within HMPREF1058_RS13070at 1599.759 kb on + strand, within HMPREF1058_RS13070at 1599.868 kb on + strandat 1599.886 kb on + strandat 1599.896 kb on - strandat 1599.896 kb on - strandat 1599.899 kb on + strandat 1599.900 kb on - strandat 1599.939 kb on + strandat 1599.942 kb on - strandat 1600.004 kb on - strandat 1600.006 kb on - strandat 1600.006 kb on - strandat 1600.006 kb on - strandat 1600.006 kb on - strandat 1600.013 kb on + strandat 1600.103 kb on + strandat 1600.103 kb on + strandat 1600.116 kb on - strandat 1600.219 kb on - strandat 1600.279 kb on + strandat 1600.322 kb on + strandat 1600.407 kb on + strand, within HMPREF1058_RS13065at 1600.456 kb on - strand, within HMPREF1058_RS13065at 1600.473 kb on - strand, within HMPREF1058_RS13065at 1600.524 kb on + strand, within HMPREF1058_RS13065at 1600.525 kb on - strand, within HMPREF1058_RS13065at 1600.525 kb on - strand, within HMPREF1058_RS13065at 1600.526 kb on + strand, within HMPREF1058_RS13065at 1600.526 kb on + strand, within HMPREF1058_RS13065at 1600.535 kb on + strand, within HMPREF1058_RS13065at 1600.536 kb on - strand, within HMPREF1058_RS13065at 1600.542 kb on + strand, within HMPREF1058_RS13065at 1600.563 kb on + strand, within HMPREF1058_RS13065at 1600.564 kb on - strand, within HMPREF1058_RS13065at 1600.583 kb on - strand, within HMPREF1058_RS13065at 1600.607 kb on + strand, within HMPREF1058_RS13065at 1600.607 kb on + strand, within HMPREF1058_RS13065at 1600.725 kb on + strand, within HMPREF1058_RS13065at 1600.735 kb on - strand, within HMPREF1058_RS13065at 1600.744 kb on - strand, within HMPREF1058_RS13065at 1600.744 kb on - strand, within HMPREF1058_RS13065at 1600.746 kb on + strand, within HMPREF1058_RS13065at 1600.777 kb on - strand, within HMPREF1058_RS13065at 1600.816 kb on + strand, within HMPREF1058_RS13065at 1600.887 kb on + strand, within HMPREF1058_RS13065at 1600.890 kb on + strand, within HMPREF1058_RS13065at 1600.890 kb on + strand, within HMPREF1058_RS13065at 1600.891 kb on - strand, within HMPREF1058_RS13065at 1600.894 kb on - strand, within HMPREF1058_RS13065at 1600.894 kb on - strand, within HMPREF1058_RS13065at 1600.934 kb on + strand, within HMPREF1058_RS13065at 1600.946 kb on - strand, within HMPREF1058_RS13065at 1600.974 kb on + strand, within HMPREF1058_RS13065at 1601.067 kb on + strand, within HMPREF1058_RS13065at 1601.131 kb on - strand, within HMPREF1058_RS13065at 1601.158 kb on + strand, within HMPREF1058_RS13065at 1601.176 kb on + strand, within HMPREF1058_RS13065at 1601.176 kb on + strand, within HMPREF1058_RS13065at 1601.188 kb on + strand, within HMPREF1058_RS13065at 1601.189 kb on - strand, within HMPREF1058_RS13065at 1601.191 kb on + strand, within HMPREF1058_RS13065at 1601.206 kb on - strand, within HMPREF1058_RS13065at 1601.220 kb on + strand, within HMPREF1058_RS13065at 1601.257 kb on + strand, within HMPREF1058_RS13065at 1601.258 kb on - strand, within HMPREF1058_RS13065at 1601.309 kb on + strand, within HMPREF1058_RS13065at 1601.388 kb on + strand, within HMPREF1058_RS13065at 1601.388 kb on + strand, within HMPREF1058_RS13065at 1601.450 kb on + strand, within HMPREF1058_RS13065at 1601.450 kb on + strand, within HMPREF1058_RS13065at 1601.493 kb on + strand, within HMPREF1058_RS13065at 1601.501 kb on + strand, within HMPREF1058_RS13065at 1601.501 kb on + strand, within HMPREF1058_RS13065at 1601.502 kb on - strand, within HMPREF1058_RS13065at 1601.502 kb on - strand, within HMPREF1058_RS13065at 1601.502 kb on - strand, within HMPREF1058_RS13065at 1601.503 kb on + strand, within HMPREF1058_RS13065at 1601.504 kb on - strand, within HMPREF1058_RS13065at 1601.504 kb on - strand, within HMPREF1058_RS13065at 1601.559 kb on + strand, within HMPREF1058_RS13065at 1601.603 kb on + strand, within HMPREF1058_RS13065at 1601.608 kb on - strand, within HMPREF1058_RS13065at 1601.678 kb on + strand, within HMPREF1058_RS13065at 1601.678 kb on + strand, within HMPREF1058_RS13065at 1601.679 kb on - strand, within HMPREF1058_RS13065at 1601.679 kb on - strand, within HMPREF1058_RS13065at 1601.679 kb on - strand, within HMPREF1058_RS13065at 1601.682 kb on + strand, within HMPREF1058_RS13065at 1601.712 kb on + strand, within HMPREF1058_RS13065at 1601.712 kb on + strand, within HMPREF1058_RS13065at 1601.712 kb on + strand, within HMPREF1058_RS13065at 1601.911 kb on - strand, within HMPREF1058_RS13065at 1601.956 kb on - strand, within HMPREF1058_RS13065at 1601.973 kb on + strand, within HMPREF1058_RS13065at 1601.974 kb on - strand, within HMPREF1058_RS13065at 1602.117 kb on + strand, within HMPREF1058_RS13065at 1602.162 kb on + strand, within HMPREF1058_RS13065at 1602.195 kb on - strand, within HMPREF1058_RS13065at 1602.249 kb on + strand, within HMPREF1058_RS13065at 1602.250 kb on - strand, within HMPREF1058_RS13065at 1602.525 kb on + strand, within HMPREF1058_RS13065at 1602.569 kb on + strand, within HMPREF1058_RS13065at 1602.569 kb on + strand, within HMPREF1058_RS13065at 1602.584 kb on - strand, within HMPREF1058_RS13065at 1602.586 kb on + strand, within HMPREF1058_RS13065at 1602.586 kb on + strandat 1602.765 kb on + strand, within HMPREF1058_RS13065at 1602.766 kb on - strand, within HMPREF1058_RS13065at 1602.766 kb on - strand, within HMPREF1058_RS13065at 1602.767 kb on + strand, within HMPREF1058_RS13065at 1602.889 kb on - strand, within HMPREF1058_RS13065at 1603.153 kb on + strandat 1603.237 kb on + strandat 1603.272 kb on - strandat 1603.371 kb on - strandat 1603.407 kb on + strandat 1603.407 kb on + strandat 1603.409 kb on + strandat 1603.444 kb on - strandat 1603.445 kb on + strandat 1603.445 kb on + strandat 1603.446 kb on - strandat 1603.447 kb on - strandat 1603.571 kb on + strand, within HMPREF1058_RS13060at 1603.571 kb on + strand, within HMPREF1058_RS13060at 1603.572 kb on - strand, within HMPREF1058_RS13060at 1603.644 kb on - strand, within HMPREF1058_RS13060at 1603.665 kb on + strand, within HMPREF1058_RS13060at 1603.666 kb on - strand, within HMPREF1058_RS13060at 1603.715 kb on - strand, within HMPREF1058_RS13060at 1603.752 kb on + strand, within HMPREF1058_RS13060at 1603.863 kb on + strandat 1603.876 kb on + strandat 1603.877 kb on - strandat 1603.881 kb on - strandat 1603.941 kb on - strandat 1603.941 kb on - strandat 1603.965 kb on + strandat 1603.966 kb on - strandat 1604.118 kb on - strandat 1604.173 kb on + strandat 1604.229 kb on + strandat 1604.302 kb on - strandat 1604.302 kb on - strandat 1604.302 kb on - strandat 1604.302 kb on - strandat 1604.303 kb on + strandat 1604.312 kb on + strand

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Per-strain Table

Position Strand Gene LocusTag Fraction Beta-Lactose 10 mM (C)
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1,599,077 + +0.6
1,599,077 + -0.1
1,599,077 + +0.6
1,599,078 - +0.2
1,599,146 + -1.1
1,599,186 - +0.1
1,599,189 + +0.3
1,599,230 + HMPREF1058_RS13070 0.13 +0.1
1,599,230 + HMPREF1058_RS13070 0.13 -0.3
1,599,284 + HMPREF1058_RS13070 0.20 -0.0
1,599,285 - HMPREF1058_RS13070 0.20 +0.1
1,599,285 - HMPREF1058_RS13070 0.20 -0.8
1,599,285 - HMPREF1058_RS13070 0.20 -1.1
1,599,364 - HMPREF1058_RS13070 0.30 -0.5
1,599,381 + HMPREF1058_RS13070 0.32 -0.7
1,599,382 - HMPREF1058_RS13070 0.32 -0.3
1,599,382 - HMPREF1058_RS13070 0.32 -0.9
1,599,486 + HMPREF1058_RS13070 0.46 -0.9
1,599,486 + HMPREF1058_RS13070 0.46 +0.1
1,599,506 + HMPREF1058_RS13070 0.48 +0.5
1,599,530 - HMPREF1058_RS13070 0.51 +0.3
1,599,538 + HMPREF1058_RS13070 0.52 -0.0
1,599,584 + HMPREF1058_RS13070 0.58 -0.2
1,599,613 + HMPREF1058_RS13070 0.62 -0.4
1,599,613 + HMPREF1058_RS13070 0.62 -0.2
1,599,614 - HMPREF1058_RS13070 0.62 -0.1
1,599,614 - HMPREF1058_RS13070 0.62 -0.0
1,599,622 - HMPREF1058_RS13070 0.63 +0.9
1,599,623 + HMPREF1058_RS13070 0.63 +0.6
1,599,624 - HMPREF1058_RS13070 0.63 -0.7
1,599,759 + HMPREF1058_RS13070 0.80 -1.1
1,599,759 + HMPREF1058_RS13070 0.80 -0.0
1,599,868 + +1.0
1,599,886 + +0.7
1,599,896 - -0.3
1,599,896 - -0.4
1,599,899 + +0.8
1,599,900 - +0.3
1,599,939 + +1.2
1,599,942 - +1.9
1,600,004 - +2.1
1,600,006 - +1.5
1,600,006 - +0.9
1,600,006 - +1.7
1,600,006 - +0.8
1,600,013 + +2.2
1,600,103 + +0.6
1,600,103 + -0.6
1,600,116 - +2.9
1,600,219 - +3.7
1,600,279 + -0.6
1,600,322 + -0.9
1,600,407 + HMPREF1058_RS13065 0.11 +0.3
1,600,456 - HMPREF1058_RS13065 0.12 +2.1
1,600,473 - HMPREF1058_RS13065 0.13 +2.7
1,600,524 + HMPREF1058_RS13065 0.14 -0.9
1,600,525 - HMPREF1058_RS13065 0.14 +2.4
1,600,525 - HMPREF1058_RS13065 0.14 +2.6
1,600,526 + HMPREF1058_RS13065 0.14 +0.0
1,600,526 + HMPREF1058_RS13065 0.14 -1.7
1,600,535 + HMPREF1058_RS13065 0.15 +1.0
1,600,536 - HMPREF1058_RS13065 0.15 +2.8
1,600,542 + HMPREF1058_RS13065 0.15 -0.6
1,600,563 + HMPREF1058_RS13065 0.15 -0.2
1,600,564 - HMPREF1058_RS13065 0.15 +2.8
1,600,583 - HMPREF1058_RS13065 0.16 +3.4
1,600,607 + HMPREF1058_RS13065 0.17 +0.1
1,600,607 + HMPREF1058_RS13065 0.17 +0.3
1,600,725 + HMPREF1058_RS13065 0.20 -0.6
1,600,735 - HMPREF1058_RS13065 0.21 +3.7
1,600,744 - HMPREF1058_RS13065 0.21 +3.0
1,600,744 - HMPREF1058_RS13065 0.21 +2.1
1,600,746 + HMPREF1058_RS13065 0.21 -0.4
1,600,777 - HMPREF1058_RS13065 0.22 +2.6
1,600,816 + HMPREF1058_RS13065 0.23 -0.7
1,600,887 + HMPREF1058_RS13065 0.25 -1.5
1,600,890 + HMPREF1058_RS13065 0.25 -2.2
1,600,890 + HMPREF1058_RS13065 0.25 -0.3
1,600,891 - HMPREF1058_RS13065 0.25 +1.4
1,600,894 - HMPREF1058_RS13065 0.25 +1.9
1,600,894 - HMPREF1058_RS13065 0.25 +2.5
1,600,934 + HMPREF1058_RS13065 0.27 +0.3
1,600,946 - HMPREF1058_RS13065 0.27 +4.2
1,600,974 + HMPREF1058_RS13065 0.28 -0.4
1,601,067 + HMPREF1058_RS13065 0.31 +0.1
1,601,131 - HMPREF1058_RS13065 0.33 +2.4
1,601,158 + HMPREF1058_RS13065 0.33 -0.4
1,601,176 + HMPREF1058_RS13065 0.34 -0.8
1,601,176 + HMPREF1058_RS13065 0.34 +0.7
1,601,188 + HMPREF1058_RS13065 0.34 +0.1
1,601,189 - HMPREF1058_RS13065 0.34 +3.1
1,601,191 + HMPREF1058_RS13065 0.34 +0.1
1,601,206 - HMPREF1058_RS13065 0.35 +2.2
1,601,220 + HMPREF1058_RS13065 0.35 +0.1
1,601,257 + HMPREF1058_RS13065 0.36 -1.0
1,601,258 - HMPREF1058_RS13065 0.36 +3.3
1,601,309 + HMPREF1058_RS13065 0.38 +0.1
1,601,388 + HMPREF1058_RS13065 0.40 +0.0
1,601,388 + HMPREF1058_RS13065 0.40 +0.0
1,601,450 + HMPREF1058_RS13065 0.42 +1.3
1,601,450 + HMPREF1058_RS13065 0.42 -0.8
1,601,493 + HMPREF1058_RS13065 0.44 +0.2
1,601,501 + HMPREF1058_RS13065 0.44 -0.2
1,601,501 + HMPREF1058_RS13065 0.44 -0.2
1,601,502 - HMPREF1058_RS13065 0.44 +3.3
1,601,502 - HMPREF1058_RS13065 0.44 +1.9
1,601,502 - HMPREF1058_RS13065 0.44 +1.8
1,601,503 + HMPREF1058_RS13065 0.44 -1.8
1,601,504 - HMPREF1058_RS13065 0.44 +1.5
1,601,504 - HMPREF1058_RS13065 0.44 +0.9
1,601,559 + HMPREF1058_RS13065 0.46 -1.0
1,601,603 + HMPREF1058_RS13065 0.47 +0.0
1,601,608 - HMPREF1058_RS13065 0.47 +1.5
1,601,678 + HMPREF1058_RS13065 0.49 +0.2
1,601,678 + HMPREF1058_RS13065 0.49 +0.2
1,601,679 - HMPREF1058_RS13065 0.49 +1.5
1,601,679 - HMPREF1058_RS13065 0.49 +1.2
1,601,679 - HMPREF1058_RS13065 0.49 +1.8
1,601,682 + HMPREF1058_RS13065 0.49 -0.7
1,601,712 + HMPREF1058_RS13065 0.50 -1.2
1,601,712 + HMPREF1058_RS13065 0.50 +0.3
1,601,712 + HMPREF1058_RS13065 0.50 -0.6
1,601,911 - HMPREF1058_RS13065 0.56 +2.4
1,601,956 - HMPREF1058_RS13065 0.58 +1.5
1,601,973 + HMPREF1058_RS13065 0.58 -0.4
1,601,974 - HMPREF1058_RS13065 0.58 +1.3
1,602,117 + HMPREF1058_RS13065 0.63 -0.9
1,602,162 + HMPREF1058_RS13065 0.64 -0.8
1,602,195 - HMPREF1058_RS13065 0.65 +1.0
1,602,249 + HMPREF1058_RS13065 0.67 +0.3
1,602,250 - HMPREF1058_RS13065 0.67 -0.4
1,602,525 + HMPREF1058_RS13065 0.75 +0.7
1,602,569 + HMPREF1058_RS13065 0.76 -0.1
1,602,569 + HMPREF1058_RS13065 0.76 +1.0
1,602,584 - HMPREF1058_RS13065 0.77 -0.7
1,602,586 + HMPREF1058_RS13065 0.77 +0.3
1,602,586 + +1.8
1,602,765 + HMPREF1058_RS13065 0.82 +0.3
1,602,766 - HMPREF1058_RS13065 0.82 +1.6
1,602,766 - HMPREF1058_RS13065 0.82 +0.2
1,602,767 + HMPREF1058_RS13065 0.82 -0.1
1,602,889 - HMPREF1058_RS13065 0.86 +2.0
1,603,153 + -0.5
1,603,237 + +2.3
1,603,272 - +0.5
1,603,371 - +2.0
1,603,407 + +0.3
1,603,407 + +0.3
1,603,409 + +0.6
1,603,444 - +0.9
1,603,445 + -0.8
1,603,445 + -0.7
1,603,446 - +2.2
1,603,447 - +0.9
1,603,571 + HMPREF1058_RS13060 0.33 -0.4
1,603,571 + HMPREF1058_RS13060 0.33 +0.3
1,603,572 - HMPREF1058_RS13060 0.33 +1.5
1,603,644 - HMPREF1058_RS13060 0.48 +1.1
1,603,665 + HMPREF1058_RS13060 0.53 -1.5
1,603,666 - HMPREF1058_RS13060 0.53 +1.5
1,603,715 - HMPREF1058_RS13060 0.63 +2.3
1,603,752 + HMPREF1058_RS13060 0.71 -0.1
1,603,863 + +0.8
1,603,876 + +0.3
1,603,877 - +1.8
1,603,881 - +0.2
1,603,941 - +1.0
1,603,941 - +1.7
1,603,965 + +0.7
1,603,966 - -0.1
1,604,118 - +1.4
1,604,173 + -0.0
1,604,229 + -0.2
1,604,302 - +0.1
1,604,302 - +0.3
1,604,302 - +0.9
1,604,302 - +0.0
1,604,303 + +0.6
1,604,312 + +2.0

Or see this region's nucleotide sequence