Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11280

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_RS11295 and HMPREF1058_RS11290 are separated by 137 nucleotidesHMPREF1058_RS11290 and HMPREF1058_RS11285 are separated by 9 nucleotidesHMPREF1058_RS11285 and HMPREF1058_RS11280 overlap by 1 nucleotidesHMPREF1058_RS11280 and HMPREF1058_RS11275 are separated by 337 nucleotidesHMPREF1058_RS11275 and HMPREF1058_RS11270 are separated by 37 nucleotides HMPREF1058_RS11295: HMPREF1058_RS11295 - methyltransferase domain-containing protein, at 407,362 to 408,258 _RS11295 HMPREF1058_RS11290: HMPREF1058_RS11290 - PspC domain-containing protein, at 408,396 to 408,632 _RS11290 HMPREF1058_RS11285: HMPREF1058_RS11285 - FKBP-type peptidyl-prolyl cis-trans isomerase, at 408,642 to 409,043 _RS11285 HMPREF1058_RS11280: HMPREF1058_RS11280 - tRNA (N6-isopentenyl adenosine(37)-C2)-methylthiotransferase MiaB, at 409,043 to 410,413 _RS11280 HMPREF1058_RS11275: HMPREF1058_RS11275 - hypothetical protein, at 410,751 to 411,101 _RS11275 HMPREF1058_RS11270: HMPREF1058_RS11270 - acetyl-CoA hydrolase/transferase family protein, at 411,139 to 412,632 _RS11270 Position (kb) 409 410 411Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 408.067 kb on - strand, within HMPREF1058_RS11295at 408.069 kb on - strandat 408.084 kb on - strand, within HMPREF1058_RS11295at 408.180 kb on - strandat 408.238 kb on - strandat 408.251 kb on - strandat 408.327 kb on - strandat 408.362 kb on + strandat 408.497 kb on + strand, within HMPREF1058_RS11290at 408.498 kb on - strand, within HMPREF1058_RS11290at 408.548 kb on + strand, within HMPREF1058_RS11290at 408.550 kb on + strand, within HMPREF1058_RS11290at 408.550 kb on + strand, within HMPREF1058_RS11290at 408.551 kb on - strand, within HMPREF1058_RS11290at 408.551 kb on - strand, within HMPREF1058_RS11290at 408.567 kb on - strand, within HMPREF1058_RS11290at 408.643 kb on + strandat 408.681 kb on - strandat 408.728 kb on + strand, within HMPREF1058_RS11285at 408.728 kb on + strand, within HMPREF1058_RS11285at 408.728 kb on + strand, within HMPREF1058_RS11285at 408.729 kb on - strand, within HMPREF1058_RS11285at 408.729 kb on - strand, within HMPREF1058_RS11285at 408.729 kb on - strand, within HMPREF1058_RS11285at 408.729 kb on - strand, within HMPREF1058_RS11285at 408.729 kb on - strand, within HMPREF1058_RS11285at 408.729 kb on - strand, within HMPREF1058_RS11285at 408.729 kb on - strand, within HMPREF1058_RS11285at 408.731 kb on - strand, within HMPREF1058_RS11285at 408.739 kb on + strand, within HMPREF1058_RS11285at 408.740 kb on - strand, within HMPREF1058_RS11285at 408.753 kb on - strand, within HMPREF1058_RS11285at 408.760 kb on - strand, within HMPREF1058_RS11285at 408.767 kb on + strand, within HMPREF1058_RS11285at 408.796 kb on + strand, within HMPREF1058_RS11285at 408.796 kb on - strand, within HMPREF1058_RS11285at 408.846 kb on - strand, within HMPREF1058_RS11285at 408.896 kb on + strand, within HMPREF1058_RS11285at 408.896 kb on + strand, within HMPREF1058_RS11285at 408.897 kb on - strand, within HMPREF1058_RS11285at 408.908 kb on + strand, within HMPREF1058_RS11285at 408.940 kb on - strand, within HMPREF1058_RS11285at 408.944 kb on + strand, within HMPREF1058_RS11285at 408.957 kb on - strand, within HMPREF1058_RS11285at 408.957 kb on - strand, within HMPREF1058_RS11285at 408.986 kb on + strand, within HMPREF1058_RS11285at 409.004 kb on - strandat 409.023 kb on - strandat 409.025 kb on - strandat 409.094 kb on + strandat 409.095 kb on - strandat 409.095 kb on - strandat 409.338 kb on + strand, within HMPREF1058_RS11280at 409.338 kb on + strand, within HMPREF1058_RS11280at 409.359 kb on + strand, within HMPREF1058_RS11280at 409.363 kb on + strand, within HMPREF1058_RS11280at 409.364 kb on - strand, within HMPREF1058_RS11280at 409.369 kb on + strand, within HMPREF1058_RS11280at 409.531 kb on - strand, within HMPREF1058_RS11280at 409.531 kb on - strand, within HMPREF1058_RS11280at 409.588 kb on + strand, within HMPREF1058_RS11280at 409.588 kb on + strand, within HMPREF1058_RS11280at 409.589 kb on - strand, within HMPREF1058_RS11280at 409.724 kb on - strand, within HMPREF1058_RS11280at 409.782 kb on - strand, within HMPREF1058_RS11280at 409.789 kb on + strand, within HMPREF1058_RS11280at 409.790 kb on - strand, within HMPREF1058_RS11280at 409.790 kb on - strand, within HMPREF1058_RS11280at 409.828 kb on + strand, within HMPREF1058_RS11280at 409.867 kb on - strand, within HMPREF1058_RS11280at 409.959 kb on - strand, within HMPREF1058_RS11280at 409.996 kb on + strand, within HMPREF1058_RS11280at 409.996 kb on + strand, within HMPREF1058_RS11280at 410.049 kb on + strand, within HMPREF1058_RS11280at 410.049 kb on + strand, within HMPREF1058_RS11280at 410.063 kb on + strand, within HMPREF1058_RS11280at 410.106 kb on - strand, within HMPREF1058_RS11280at 410.167 kb on + strand, within HMPREF1058_RS11280at 410.167 kb on + strand, within HMPREF1058_RS11280at 410.167 kb on + strand, within HMPREF1058_RS11280at 410.168 kb on - strand, within HMPREF1058_RS11280at 410.241 kb on - strand, within HMPREF1058_RS11280at 410.270 kb on + strand, within HMPREF1058_RS11280at 410.270 kb on + strand, within HMPREF1058_RS11280at 410.414 kb on - strandat 410.427 kb on + strandat 410.571 kb on + strandat 410.574 kb on + strandat 410.574 kb on + strandat 410.579 kb on + strandat 410.588 kb on + strandat 410.690 kb on + strandat 410.690 kb on + strandat 410.691 kb on - strandat 410.699 kb on - strandat 410.734 kb on + strandat 410.735 kb on - strandat 410.735 kb on - strandat 410.769 kb on - strandat 410.774 kb on - strandat 410.779 kb on + strandat 410.782 kb on + strandat 410.867 kb on + strand, within HMPREF1058_RS11275at 410.868 kb on - strand, within HMPREF1058_RS11275at 410.882 kb on - strand, within HMPREF1058_RS11275at 410.896 kb on + strand, within HMPREF1058_RS11275at 410.896 kb on + strand, within HMPREF1058_RS11275at 411.030 kb on - strand, within HMPREF1058_RS11275at 411.031 kb on + strand, within HMPREF1058_RS11275at 411.031 kb on + strand, within HMPREF1058_RS11275at 411.114 kb on + strandat 411.115 kb on - strandat 411.118 kb on - strandat 411.136 kb on - strandat 411.148 kb on - strandat 411.193 kb on + strandat 411.304 kb on - strand, within HMPREF1058_RS11270at 411.306 kb on + strand, within HMPREF1058_RS11270at 411.306 kb on + strand, within HMPREF1058_RS11270at 411.306 kb on + strand, within HMPREF1058_RS11270at 411.325 kb on - strand, within HMPREF1058_RS11270at 411.337 kb on - strand, within HMPREF1058_RS11270at 411.351 kb on - strand, within HMPREF1058_RS11270

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Per-strain Table

Position Strand Gene LocusTag Fraction Beta-Lactose 10 mM (C)
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408,067 - HMPREF1058_RS11295 0.79 -1.4
408,069 - +1.4
408,084 - HMPREF1058_RS11295 0.80 -0.4
408,180 - -1.0
408,238 - -0.2
408,251 - -1.7
408,327 - -2.0
408,362 + -1.1
408,497 + HMPREF1058_RS11290 0.43 -0.1
408,498 - HMPREF1058_RS11290 0.43 -0.9
408,548 + HMPREF1058_RS11290 0.64 +0.6
408,550 + HMPREF1058_RS11290 0.65 -0.6
408,550 + HMPREF1058_RS11290 0.65 +0.2
408,551 - HMPREF1058_RS11290 0.65 +0.4
408,551 - HMPREF1058_RS11290 0.65 +0.5
408,567 - HMPREF1058_RS11290 0.72 -0.6
408,643 + -0.1
408,681 - +0.0
408,728 + HMPREF1058_RS11285 0.21 +0.6
408,728 + HMPREF1058_RS11285 0.21 +0.1
408,728 + HMPREF1058_RS11285 0.21 +0.2
408,729 - HMPREF1058_RS11285 0.22 -0.4
408,729 - HMPREF1058_RS11285 0.22 -0.1
408,729 - HMPREF1058_RS11285 0.22 +0.0
408,729 - HMPREF1058_RS11285 0.22 +0.2
408,729 - HMPREF1058_RS11285 0.22 -0.4
408,729 - HMPREF1058_RS11285 0.22 +0.8
408,729 - HMPREF1058_RS11285 0.22 +0.7
408,731 - HMPREF1058_RS11285 0.22 -0.4
408,739 + HMPREF1058_RS11285 0.24 -0.6
408,740 - HMPREF1058_RS11285 0.24 -0.4
408,753 - HMPREF1058_RS11285 0.28 -1.7
408,760 - HMPREF1058_RS11285 0.29 +0.2
408,767 + HMPREF1058_RS11285 0.31 -2.8
408,796 + HMPREF1058_RS11285 0.38 +0.2
408,796 - HMPREF1058_RS11285 0.38 -0.8
408,846 - HMPREF1058_RS11285 0.51 +0.0
408,896 + HMPREF1058_RS11285 0.63 +1.1
408,896 + HMPREF1058_RS11285 0.63 +0.6
408,897 - HMPREF1058_RS11285 0.63 -0.4
408,908 + HMPREF1058_RS11285 0.66 +0.5
408,940 - HMPREF1058_RS11285 0.74 -0.0
408,944 + HMPREF1058_RS11285 0.75 +0.2
408,957 - HMPREF1058_RS11285 0.78 -0.8
408,957 - HMPREF1058_RS11285 0.78 +1.0
408,986 + HMPREF1058_RS11285 0.86 -0.5
409,004 - -0.1
409,023 - +0.9
409,025 - +0.4
409,094 + +0.1
409,095 - +0.6
409,095 - -0.1
409,338 + HMPREF1058_RS11280 0.22 -1.2
409,338 + HMPREF1058_RS11280 0.22 -0.9
409,359 + HMPREF1058_RS11280 0.23 +1.9
409,363 + HMPREF1058_RS11280 0.23 +0.6
409,364 - HMPREF1058_RS11280 0.23 +0.8
409,369 + HMPREF1058_RS11280 0.24 -0.9
409,531 - HMPREF1058_RS11280 0.36 +0.4
409,531 - HMPREF1058_RS11280 0.36 -1.4
409,588 + HMPREF1058_RS11280 0.40 +0.2
409,588 + HMPREF1058_RS11280 0.40 -0.9
409,589 - HMPREF1058_RS11280 0.40 +1.7
409,724 - HMPREF1058_RS11280 0.50 +0.7
409,782 - HMPREF1058_RS11280 0.54 +1.3
409,789 + HMPREF1058_RS11280 0.54 -0.5
409,790 - HMPREF1058_RS11280 0.54 +0.3
409,790 - HMPREF1058_RS11280 0.54 +0.5
409,828 + HMPREF1058_RS11280 0.57 -0.8
409,867 - HMPREF1058_RS11280 0.60 +0.9
409,959 - HMPREF1058_RS11280 0.67 +0.1
409,996 + HMPREF1058_RS11280 0.70 +1.1
409,996 + HMPREF1058_RS11280 0.70 -0.2
410,049 + HMPREF1058_RS11280 0.73 +0.9
410,049 + HMPREF1058_RS11280 0.73 -0.9
410,063 + HMPREF1058_RS11280 0.74 -0.0
410,106 - HMPREF1058_RS11280 0.78 +0.1
410,167 + HMPREF1058_RS11280 0.82 +0.4
410,167 + HMPREF1058_RS11280 0.82 +1.6
410,167 + HMPREF1058_RS11280 0.82 +0.8
410,168 - HMPREF1058_RS11280 0.82 +0.3
410,241 - HMPREF1058_RS11280 0.87 +0.9
410,270 + HMPREF1058_RS11280 0.89 +0.4
410,270 + HMPREF1058_RS11280 0.89 +0.4
410,414 - -0.1
410,427 + +1.3
410,571 + +0.4
410,574 + -0.9
410,574 + -0.0
410,579 + -1.2
410,588 + +2.1
410,690 + -0.8
410,690 + -3.2
410,691 - -0.5
410,699 - +0.8
410,734 + +0.2
410,735 - +0.5
410,735 - -2.5
410,769 - -0.5
410,774 - +0.1
410,779 + -1.2
410,782 + +0.3
410,867 + HMPREF1058_RS11275 0.33 -0.7
410,868 - HMPREF1058_RS11275 0.33 -3.7
410,882 - HMPREF1058_RS11275 0.37 -3.1
410,896 + HMPREF1058_RS11275 0.41 -1.1
410,896 + HMPREF1058_RS11275 0.41 -0.2
411,030 - HMPREF1058_RS11275 0.79 -2.3
411,031 + HMPREF1058_RS11275 0.80 -0.1
411,031 + HMPREF1058_RS11275 0.80 +0.0
411,114 + +0.0
411,115 - -2.5
411,118 - -3.4
411,136 - -2.7
411,148 - -1.9
411,193 + -2.0
411,304 - HMPREF1058_RS11270 0.11 -2.4
411,306 + HMPREF1058_RS11270 0.11 -3.4
411,306 + HMPREF1058_RS11270 0.11 -2.8
411,306 + HMPREF1058_RS11270 0.11 -1.2
411,325 - HMPREF1058_RS11270 0.12 -1.1
411,337 - HMPREF1058_RS11270 0.13 -2.1
411,351 - HMPREF1058_RS11270 0.14 -2.7

Or see this region's nucleotide sequence