Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS10275

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5

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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_RS10295 and HMPREF1058_RS10290 overlap by 4 nucleotidesHMPREF1058_RS10290 and HMPREF1058_RS10285 overlap by 4 nucleotidesHMPREF1058_RS10285 and HMPREF1058_RS10275 are separated by 309 nucleotidesHMPREF1058_RS10275 and HMPREF1058_RS10270 are separated by 25 nucleotidesHMPREF1058_RS10270 and HMPREF1058_RS10265 overlap by 4 nucleotidesHMPREF1058_RS10265 and HMPREF1058_RS10260 are separated by 2 nucleotides HMPREF1058_RS10295: HMPREF1058_RS10295 - hypothetical protein, at 694,852 to 695,319 _RS10295 HMPREF1058_RS10290: HMPREF1058_RS10290 - hypothetical protein, at 695,316 to 695,621 _RS10290 HMPREF1058_RS10285: HMPREF1058_RS10285 - hypothetical protein, at 695,618 to 695,902 _RS10285 HMPREF1058_RS10275: HMPREF1058_RS10275 - RNA-splicing ligase RtcB, at 696,212 to 697,399 _RS10275 HMPREF1058_RS10270: HMPREF1058_RS10270 - hypothetical protein, at 697,425 to 697,676 _RS10270 HMPREF1058_RS10265: HMPREF1058_RS10265 - hypothetical protein, at 697,673 to 697,891 _RS10265 HMPREF1058_RS10260: HMPREF1058_RS10260 - ADP-ribosylglycohydrolase family protein, at 697,894 to 698,658 _RS10260 Position (kb) 696 697 698Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2at 695.371 kb on + strand, within HMPREF1058_RS10290at 695.395 kb on + strand, within HMPREF1058_RS10290at 695.517 kb on + strand, within HMPREF1058_RS10290at 695.517 kb on + strand, within HMPREF1058_RS10290at 695.537 kb on + strand, within HMPREF1058_RS10290at 695.537 kb on + strand, within HMPREF1058_RS10290at 695.538 kb on - strand, within HMPREF1058_RS10290at 695.547 kb on - strand, within HMPREF1058_RS10290at 695.606 kb on + strandat 695.617 kb on + strandat 695.625 kb on - strandat 695.658 kb on + strand, within HMPREF1058_RS10285at 695.663 kb on - strand, within HMPREF1058_RS10285at 695.691 kb on + strand, within HMPREF1058_RS10285at 695.767 kb on - strand, within HMPREF1058_RS10285at 695.848 kb on - strand, within HMPREF1058_RS10285at 695.858 kb on + strand, within HMPREF1058_RS10285at 695.858 kb on + strand, within HMPREF1058_RS10285at 695.859 kb on - strand, within HMPREF1058_RS10285at 695.883 kb on + strandat 695.907 kb on - strandat 695.912 kb on + strandat 695.912 kb on + strandat 695.922 kb on + strandat 695.923 kb on - strandat 695.923 kb on - strandat 695.926 kb on + strandat 695.927 kb on - strandat 695.928 kb on + strandat 695.929 kb on - strandat 695.957 kb on - strandat 696.002 kb on + strandat 696.002 kb on + strandat 696.053 kb on + strandat 696.054 kb on - strandat 696.085 kb on + strandat 696.111 kb on + strandat 696.111 kb on + strandat 696.112 kb on - strandat 696.199 kb on - strandat 696.305 kb on - strandat 696.328 kb on + strandat 696.328 kb on + strandat 696.380 kb on - strand, within HMPREF1058_RS10275at 696.380 kb on - strand, within HMPREF1058_RS10275at 696.382 kb on + strand, within HMPREF1058_RS10275at 696.383 kb on - strand, within HMPREF1058_RS10275at 696.383 kb on - strand, within HMPREF1058_RS10275at 696.449 kb on - strand, within HMPREF1058_RS10275at 696.473 kb on - strand, within HMPREF1058_RS10275at 696.529 kb on + strand, within HMPREF1058_RS10275at 696.531 kb on + strand, within HMPREF1058_RS10275at 696.531 kb on + strand, within HMPREF1058_RS10275at 696.532 kb on - strand, within HMPREF1058_RS10275at 696.532 kb on - strand, within HMPREF1058_RS10275at 696.532 kb on - strand, within HMPREF1058_RS10275at 696.570 kb on + strand, within HMPREF1058_RS10275at 696.571 kb on - strand, within HMPREF1058_RS10275at 696.594 kb on + strand, within HMPREF1058_RS10275at 696.605 kb on + strand, within HMPREF1058_RS10275at 696.605 kb on + strand, within HMPREF1058_RS10275at 696.606 kb on - strand, within HMPREF1058_RS10275at 696.673 kb on + strand, within HMPREF1058_RS10275at 696.677 kb on + strand, within HMPREF1058_RS10275at 696.677 kb on + strand, within HMPREF1058_RS10275at 696.678 kb on - strand, within HMPREF1058_RS10275at 696.680 kb on + strand, within HMPREF1058_RS10275at 696.703 kb on + strand, within HMPREF1058_RS10275at 696.755 kb on - strand, within HMPREF1058_RS10275at 696.908 kb on + strand, within HMPREF1058_RS10275at 696.909 kb on - strand, within HMPREF1058_RS10275at 696.911 kb on - strand, within HMPREF1058_RS10275at 696.958 kb on + strand, within HMPREF1058_RS10275at 696.959 kb on - strand, within HMPREF1058_RS10275at 696.959 kb on - strand, within HMPREF1058_RS10275at 696.994 kb on + strand, within HMPREF1058_RS10275at 697.028 kb on + strand, within HMPREF1058_RS10275at 697.029 kb on - strand, within HMPREF1058_RS10275at 697.093 kb on - strand, within HMPREF1058_RS10275at 697.095 kb on + strand, within HMPREF1058_RS10275at 697.102 kb on + strand, within HMPREF1058_RS10275at 697.196 kb on - strand, within HMPREF1058_RS10275at 697.284 kb on + strandat 697.304 kb on + strandat 697.378 kb on + strandat 697.433 kb on - strandat 697.451 kb on - strand, within HMPREF1058_RS10270at 697.538 kb on - strand, within HMPREF1058_RS10270at 697.538 kb on - strand, within HMPREF1058_RS10270at 697.599 kb on + strand, within HMPREF1058_RS10270at 697.604 kb on + strand, within HMPREF1058_RS10270at 697.604 kb on + strand, within HMPREF1058_RS10270at 697.724 kb on + strand, within HMPREF1058_RS10265at 697.785 kb on + strand, within HMPREF1058_RS10265at 697.898 kb on + strandat 697.910 kb on + strandat 697.911 kb on - strandat 697.923 kb on - strandat 698.001 kb on + strand, within HMPREF1058_RS10260at 698.002 kb on - strand, within HMPREF1058_RS10260at 698.139 kb on + strand, within HMPREF1058_RS10260at 698.153 kb on - strand, within HMPREF1058_RS10260at 698.154 kb on + strand, within HMPREF1058_RS10260at 698.157 kb on + strand, within HMPREF1058_RS10260at 698.221 kb on - strand, within HMPREF1058_RS10260at 698.279 kb on + strand, within HMPREF1058_RS10260at 698.365 kb on + strand, within HMPREF1058_RS10260at 698.365 kb on + strand, within HMPREF1058_RS10260at 698.373 kb on + strand, within HMPREF1058_RS10260at 698.373 kb on + strand, within HMPREF1058_RS10260at 698.374 kb on - strand, within HMPREF1058_RS10260at 698.374 kb on - strand, within HMPREF1058_RS10260at 698.374 kb on - strand, within HMPREF1058_RS10260at 698.395 kb on + strand, within HMPREF1058_RS10260

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse9; day5
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695,371 + HMPREF1058_RS10290 0.18 -1.3
695,395 + HMPREF1058_RS10290 0.26 -2.9
695,517 + HMPREF1058_RS10290 0.66 -4.7
695,517 + HMPREF1058_RS10290 0.66 -1.3
695,537 + HMPREF1058_RS10290 0.72 -4.2
695,537 + HMPREF1058_RS10290 0.72 -2.6
695,538 - HMPREF1058_RS10290 0.73 -1.1
695,547 - HMPREF1058_RS10290 0.75 +0.3
695,606 + -3.3
695,617 + -3.5
695,625 - +0.2
695,658 + HMPREF1058_RS10285 0.14 -4.5
695,663 - HMPREF1058_RS10285 0.16 +0.1
695,691 + HMPREF1058_RS10285 0.26 -3.1
695,767 - HMPREF1058_RS10285 0.52 +0.1
695,848 - HMPREF1058_RS10285 0.81 +0.4
695,858 + HMPREF1058_RS10285 0.84 -1.3
695,858 + HMPREF1058_RS10285 0.84 -4.3
695,859 - HMPREF1058_RS10285 0.85 +1.4
695,883 + -4.2
695,907 - -0.6
695,912 + -2.9
695,912 + -0.3
695,922 + -1.3
695,923 - -0.4
695,923 - +1.1
695,926 + -0.3
695,927 - -0.6
695,928 + -3.1
695,929 - -0.1
695,957 - -0.9
696,002 + -1.9
696,002 + -3.1
696,053 + -1.3
696,054 - -2.3
696,085 + -2.6
696,111 + -3.5
696,111 + -3.1
696,112 - +0.4
696,199 - -2.9
696,305 - -1.6
696,328 + -0.5
696,328 + -3.2
696,380 - HMPREF1058_RS10275 0.14 -2.3
696,380 - HMPREF1058_RS10275 0.14 -3.3
696,382 + HMPREF1058_RS10275 0.14 -0.9
696,383 - HMPREF1058_RS10275 0.14 -3.0
696,383 - HMPREF1058_RS10275 0.14 -1.3
696,449 - HMPREF1058_RS10275 0.20 -4.0
696,473 - HMPREF1058_RS10275 0.22 -2.3
696,529 + HMPREF1058_RS10275 0.27 -3.3
696,531 + HMPREF1058_RS10275 0.27 -1.3
696,531 + HMPREF1058_RS10275 0.27 -2.5
696,532 - HMPREF1058_RS10275 0.27 -0.3
696,532 - HMPREF1058_RS10275 0.27 -2.3
696,532 - HMPREF1058_RS10275 0.27 +0.7
696,570 + HMPREF1058_RS10275 0.30 -2.3
696,571 - HMPREF1058_RS10275 0.30 -2.3
696,594 + HMPREF1058_RS10275 0.32 -3.6
696,605 + HMPREF1058_RS10275 0.33 -1.3
696,605 + HMPREF1058_RS10275 0.33 +0.0
696,606 - HMPREF1058_RS10275 0.33 +1.3
696,673 + HMPREF1058_RS10275 0.39 -3.3
696,677 + HMPREF1058_RS10275 0.39 -1.3
696,677 + HMPREF1058_RS10275 0.39 -1.3
696,678 - HMPREF1058_RS10275 0.39 -1.9
696,680 + HMPREF1058_RS10275 0.39 -1.9
696,703 + HMPREF1058_RS10275 0.41 -2.3
696,755 - HMPREF1058_RS10275 0.46 -1.3
696,908 + HMPREF1058_RS10275 0.59 -2.6
696,909 - HMPREF1058_RS10275 0.59 -1.3
696,911 - HMPREF1058_RS10275 0.59 -1.3
696,958 + HMPREF1058_RS10275 0.63 -4.8
696,959 - HMPREF1058_RS10275 0.63 -1.3
696,959 - HMPREF1058_RS10275 0.63 -3.5
696,994 + HMPREF1058_RS10275 0.66 -1.3
697,028 + HMPREF1058_RS10275 0.69 -0.3
697,029 - HMPREF1058_RS10275 0.69 -4.0
697,093 - HMPREF1058_RS10275 0.74 -0.3
697,095 + HMPREF1058_RS10275 0.74 -4.3
697,102 + HMPREF1058_RS10275 0.75 -1.9
697,196 - HMPREF1058_RS10275 0.83 -2.3
697,284 + -1.3
697,304 + -2.9
697,378 + -4.4
697,433 - -2.9
697,451 - HMPREF1058_RS10270 0.10 -2.3
697,538 - HMPREF1058_RS10270 0.45 -2.3
697,538 - HMPREF1058_RS10270 0.45 -1.6
697,599 + HMPREF1058_RS10270 0.69 -4.1
697,604 + HMPREF1058_RS10270 0.71 -3.1
697,604 + HMPREF1058_RS10270 0.71 -4.3
697,724 + HMPREF1058_RS10265 0.23 -0.8
697,785 + HMPREF1058_RS10265 0.51 -1.9
697,898 + -0.3
697,910 + -1.0
697,911 - -1.3
697,923 - -0.3
698,001 + HMPREF1058_RS10260 0.14 -3.3
698,002 - HMPREF1058_RS10260 0.14 -2.3
698,139 + HMPREF1058_RS10260 0.32 +0.8
698,153 - HMPREF1058_RS10260 0.34 -1.9
698,154 + HMPREF1058_RS10260 0.34 -0.9
698,157 + HMPREF1058_RS10260 0.34 -1.1
698,221 - HMPREF1058_RS10260 0.43 -2.9
698,279 + HMPREF1058_RS10260 0.50 -1.6
698,365 + HMPREF1058_RS10260 0.62 -2.3
698,365 + HMPREF1058_RS10260 0.62 +2.0
698,373 + HMPREF1058_RS10260 0.63 -2.3
698,373 + HMPREF1058_RS10260 0.63 -1.9
698,374 - HMPREF1058_RS10260 0.63 -1.9
698,374 - HMPREF1058_RS10260 0.63 -1.9
698,374 - HMPREF1058_RS10260 0.63 -2.9
698,395 + HMPREF1058_RS10260 0.65 -1.3

Or see this region's nucleotide sequence