Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08350

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day7

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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_RS08365 and HMPREF1058_RS08360 are separated by 52 nucleotidesHMPREF1058_RS08360 and HMPREF1058_RS08355 overlap by 11 nucleotidesHMPREF1058_RS08355 and HMPREF1058_RS08350 are separated by 171 nucleotidesHMPREF1058_RS08350 and HMPREF1058_RS08345 overlap by 4 nucleotides HMPREF1058_RS08365: HMPREF1058_RS08365 - glycoside hydrolase family 127 protein, at 1,181,189 to 1,183,540 _RS08365 HMPREF1058_RS08360: HMPREF1058_RS08360 - type II toxin-antitoxin system RelE/ParE family toxin, at 1,183,593 to 1,183,934 _RS08360 HMPREF1058_RS08355: HMPREF1058_RS08355 - hypothetical protein, at 1,183,924 to 1,184,199 _RS08355 HMPREF1058_RS08350: HMPREF1058_RS08350 - exonuclease SbcCD subunit D C-terminal domain-containing protein, at 1,184,371 to 1,185,573 _RS08350 HMPREF1058_RS08345: HMPREF1058_RS08345 - AAA family ATPase, at 1,185,570 to 1,188,653 _RS08345 Position (kb) 1184 1185 1186Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 1183.438 kb on - strandat 1183.447 kb on + strandat 1183.447 kb on + strandat 1183.448 kb on - strandat 1183.448 kb on - strandat 1183.510 kb on + strandat 1183.510 kb on + strandat 1183.545 kb on - strandat 1183.545 kb on - strandat 1183.551 kb on - strandat 1183.662 kb on - strand, within HMPREF1058_RS08360at 1183.765 kb on - strand, within HMPREF1058_RS08360at 1183.776 kb on + strand, within HMPREF1058_RS08360at 1183.777 kb on - strand, within HMPREF1058_RS08360at 1183.869 kb on - strand, within HMPREF1058_RS08360at 1183.869 kb on - strand, within HMPREF1058_RS08360at 1183.890 kb on - strand, within HMPREF1058_RS08360at 1184.039 kb on + strand, within HMPREF1058_RS08355at 1184.222 kb on - strandat 1184.226 kb on - strandat 1184.306 kb on - strandat 1184.495 kb on + strand, within HMPREF1058_RS08350at 1184.495 kb on + strand, within HMPREF1058_RS08350at 1184.496 kb on - strand, within HMPREF1058_RS08350at 1184.557 kb on + strand, within HMPREF1058_RS08350at 1184.608 kb on - strand, within HMPREF1058_RS08350at 1184.674 kb on - strand, within HMPREF1058_RS08350at 1184.721 kb on + strand, within HMPREF1058_RS08350at 1184.721 kb on + strand, within HMPREF1058_RS08350at 1184.723 kb on + strand, within HMPREF1058_RS08350at 1184.724 kb on - strand, within HMPREF1058_RS08350at 1185.337 kb on + strand, within HMPREF1058_RS08350at 1185.338 kb on - strand, within HMPREF1058_RS08350at 1185.343 kb on + strand, within HMPREF1058_RS08350at 1185.503 kb on - strandat 1185.552 kb on - strandat 1185.577 kb on + strandat 1185.623 kb on + strandat 1185.664 kb on + strandat 1185.665 kb on - strandat 1185.674 kb on + strandat 1185.740 kb on + strandat 1185.749 kb on + strandat 1185.750 kb on - strandat 1186.016 kb on - strand, within HMPREF1058_RS08345at 1186.184 kb on + strand, within HMPREF1058_RS08345at 1186.184 kb on + strand, within HMPREF1058_RS08345at 1186.188 kb on + strand, within HMPREF1058_RS08345at 1186.221 kb on - strand, within HMPREF1058_RS08345at 1186.506 kb on + strand, within HMPREF1058_RS08345at 1186.506 kb on + strand, within HMPREF1058_RS08345at 1186.507 kb on - strand, within HMPREF1058_RS08345at 1186.509 kb on - strand, within HMPREF1058_RS08345at 1186.537 kb on + strand, within HMPREF1058_RS08345at 1186.567 kb on + strand, within HMPREF1058_RS08345

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse20; day7
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1,183,438 - +0.7
1,183,447 + -0.6
1,183,447 + +0.1
1,183,448 - -1.7
1,183,448 - +1.2
1,183,510 + -0.1
1,183,510 + +0.3
1,183,545 - +0.8
1,183,545 - +0.5
1,183,551 - -0.5
1,183,662 - HMPREF1058_RS08360 0.20 +0.8
1,183,765 - HMPREF1058_RS08360 0.50 -2.1
1,183,776 + HMPREF1058_RS08360 0.54 +0.8
1,183,777 - HMPREF1058_RS08360 0.54 -0.6
1,183,869 - HMPREF1058_RS08360 0.81 +0.7
1,183,869 - HMPREF1058_RS08360 0.81 +0.4
1,183,890 - HMPREF1058_RS08360 0.87 +0.1
1,184,039 + HMPREF1058_RS08355 0.42 -1.5
1,184,222 - -0.8
1,184,226 - +0.9
1,184,306 - -0.3
1,184,495 + HMPREF1058_RS08350 0.10 -1.8
1,184,495 + HMPREF1058_RS08350 0.10 -1.2
1,184,496 - HMPREF1058_RS08350 0.10 -0.4
1,184,557 + HMPREF1058_RS08350 0.15 +1.0
1,184,608 - HMPREF1058_RS08350 0.20 -2.2
1,184,674 - HMPREF1058_RS08350 0.25 -1.6
1,184,721 + HMPREF1058_RS08350 0.29 +0.6
1,184,721 + HMPREF1058_RS08350 0.29 -2.6
1,184,723 + HMPREF1058_RS08350 0.29 -1.4
1,184,724 - HMPREF1058_RS08350 0.29 -1.5
1,185,337 + HMPREF1058_RS08350 0.80 -0.9
1,185,338 - HMPREF1058_RS08350 0.80 -0.3
1,185,343 + HMPREF1058_RS08350 0.81 +0.1
1,185,503 - +0.4
1,185,552 - -3.4
1,185,577 + +0.3
1,185,623 + +0.9
1,185,664 + -0.7
1,185,665 - +2.0
1,185,674 + -2.8
1,185,740 + +0.3
1,185,749 + +0.4
1,185,750 - -0.4
1,186,016 - HMPREF1058_RS08345 0.14 -2.4
1,186,184 + HMPREF1058_RS08345 0.20 +2.2
1,186,184 + HMPREF1058_RS08345 0.20 -1.9
1,186,188 + HMPREF1058_RS08345 0.20 +0.6
1,186,221 - HMPREF1058_RS08345 0.21 +0.5
1,186,506 + HMPREF1058_RS08345 0.30 -0.8
1,186,506 + HMPREF1058_RS08345 0.30 -0.4
1,186,507 - HMPREF1058_RS08345 0.30 +0.2
1,186,509 - HMPREF1058_RS08345 0.30 +0.4
1,186,537 + HMPREF1058_RS08345 0.31 +1.3
1,186,567 + HMPREF1058_RS08345 0.32 -0.1

Or see this region's nucleotide sequence