Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS17490

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; 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_RS17495 and HMPREF1058_RS17490 are separated by 129 nucleotidesHMPREF1058_RS17490 and HMPREF1058_RS17485 are separated by 25 nucleotides HMPREF1058_RS17495: HMPREF1058_RS17495 - DUF4981 domain-containing protein, at 418,483 to 421,674 _RS17495 HMPREF1058_RS17490: HMPREF1058_RS17490 - RagB/SusD family nutrient uptake outer membrane protein, at 421,804 to 423,303 _RS17490 HMPREF1058_RS17485: HMPREF1058_RS17485 - TonB-dependent receptor, at 423,329 to 426,403 _RS17485 Position (kb) 421 422 423 424Strain fitness (log2 ratio) -3 -2 -1 0 1 2 3at 420.808 kb on - strand, within HMPREF1058_RS17495at 420.814 kb on + strand, within HMPREF1058_RS17495at 420.855 kb on + strand, within HMPREF1058_RS17495at 420.855 kb on + strand, within HMPREF1058_RS17495at 420.858 kb on - strandat 420.959 kb on + strand, within HMPREF1058_RS17495at 420.959 kb on + strand, within HMPREF1058_RS17495at 420.985 kb on - strand, within HMPREF1058_RS17495at 421.059 kb on + strand, within HMPREF1058_RS17495at 421.128 kb on + strand, within HMPREF1058_RS17495at 421.137 kb on + strand, within HMPREF1058_RS17495at 421.159 kb on - strand, within HMPREF1058_RS17495at 421.257 kb on + strand, within HMPREF1058_RS17495at 421.299 kb on + strand, within HMPREF1058_RS17495at 421.299 kb on + strand, within HMPREF1058_RS17495at 421.367 kb on + strandat 421.367 kb on + strandat 421.368 kb on - strandat 421.575 kb on + strandat 421.612 kb on + strandat 421.613 kb on - strandat 421.664 kb on + strandat 421.664 kb on + strandat 421.666 kb on + strandat 421.729 kb on + strandat 421.787 kb on + strandat 421.911 kb on + strandat 421.959 kb on + strand, within HMPREF1058_RS17490at 421.998 kb on + strand, within HMPREF1058_RS17490at 422.074 kb on + strand, within HMPREF1058_RS17490at 422.087 kb on + strand, within HMPREF1058_RS17490at 422.145 kb on - strand, within HMPREF1058_RS17490at 422.167 kb on - strand, within HMPREF1058_RS17490at 422.234 kb on + strand, within HMPREF1058_RS17490at 422.269 kb on + strand, within HMPREF1058_RS17490at 422.315 kb on - strand, within HMPREF1058_RS17490at 422.315 kb on - strand, within HMPREF1058_RS17490at 422.405 kb on + strandat 422.406 kb on - strand, within HMPREF1058_RS17490at 422.487 kb on + strand, within HMPREF1058_RS17490at 422.527 kb on - strand, within HMPREF1058_RS17490at 422.602 kb on - strand, within HMPREF1058_RS17490at 422.603 kb on + strand, within HMPREF1058_RS17490at 422.609 kb on + strand, within HMPREF1058_RS17490at 422.643 kb on - strand, within HMPREF1058_RS17490at 422.651 kb on + strand, within HMPREF1058_RS17490at 422.652 kb on - strand, within HMPREF1058_RS17490at 422.652 kb on - strand, within HMPREF1058_RS17490at 422.652 kb on - strand, within HMPREF1058_RS17490at 422.737 kb on - strand, within HMPREF1058_RS17490at 422.778 kb on + strand, within HMPREF1058_RS17490at 422.778 kb on + strand, within HMPREF1058_RS17490at 422.811 kb on + strand, within HMPREF1058_RS17490at 422.811 kb on + strand, within HMPREF1058_RS17490at 422.812 kb on - strand, within HMPREF1058_RS17490at 422.813 kb on + strand, within HMPREF1058_RS17490at 422.993 kb on - strand, within HMPREF1058_RS17490at 422.995 kb on - strand, within HMPREF1058_RS17490at 423.067 kb on - strand, within HMPREF1058_RS17490at 423.101 kb on + strand, within HMPREF1058_RS17490at 423.102 kb on - strand, within HMPREF1058_RS17490at 423.102 kb on - strand, within HMPREF1058_RS17490at 423.104 kb on + strand, within HMPREF1058_RS17490at 423.105 kb on - strand, within HMPREF1058_RS17490at 423.122 kb on + strand, within HMPREF1058_RS17490at 423.126 kb on - strand, within HMPREF1058_RS17490at 423.129 kb on + strand, within HMPREF1058_RS17490at 423.152 kb on - strand, within HMPREF1058_RS17490at 423.368 kb on - strandat 423.386 kb on + strandat 423.463 kb on - strandat 423.463 kb on - strandat 423.543 kb on - strandat 423.556 kb on + strandat 423.557 kb on - strandat 423.560 kb on + strandat 423.602 kb on + strandat 423.615 kb on - strandat 423.706 kb on - strand, within HMPREF1058_RS17485at 423.729 kb on + strand, within HMPREF1058_RS17485at 423.826 kb on + strand, within HMPREF1058_RS17485at 423.905 kb on - strand, within HMPREF1058_RS17485at 423.909 kb on + strand, within HMPREF1058_RS17485at 423.958 kb on - strand, within HMPREF1058_RS17485at 423.965 kb on - strand, within HMPREF1058_RS17485at 424.025 kb on - strand, within HMPREF1058_RS17485at 424.046 kb on - strand, within HMPREF1058_RS17485at 424.052 kb on - strand, within HMPREF1058_RS17485at 424.112 kb on - strand, within HMPREF1058_RS17485at 424.193 kb on - strand, within HMPREF1058_RS17485at 424.204 kb on - strand, within HMPREF1058_RS17485at 424.233 kb on + strand, within HMPREF1058_RS17485at 424.234 kb on - strand, within HMPREF1058_RS17485at 424.262 kb on - strand, within HMPREF1058_RS17485at 424.262 kb on - strand, within HMPREF1058_RS17485

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day5
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420,808 - HMPREF1058_RS17495 0.73 -2.0
420,814 + HMPREF1058_RS17495 0.73 +1.7
420,855 + HMPREF1058_RS17495 0.74 -0.0
420,855 + HMPREF1058_RS17495 0.74 -1.4
420,858 - -2.0
420,959 + HMPREF1058_RS17495 0.78 +0.8
420,959 + HMPREF1058_RS17495 0.78 -0.6
420,985 - HMPREF1058_RS17495 0.78 +0.6
421,059 + HMPREF1058_RS17495 0.81 -0.3
421,128 + HMPREF1058_RS17495 0.83 -0.6
421,137 + HMPREF1058_RS17495 0.83 +1.8
421,159 - HMPREF1058_RS17495 0.84 +1.0
421,257 + HMPREF1058_RS17495 0.87 -1.2
421,299 + HMPREF1058_RS17495 0.88 -0.0
421,299 + HMPREF1058_RS17495 0.88 +1.0
421,367 + +1.0
421,367 + +0.5
421,368 - +1.1
421,575 + +1.0
421,612 + -0.4
421,613 - -1.4
421,664 + +0.4
421,664 + -2.9
421,666 + +1.6
421,729 + +1.0
421,787 + -2.0
421,911 + +0.4
421,959 + HMPREF1058_RS17490 0.10 -0.5
421,998 + HMPREF1058_RS17490 0.13 -1.0
422,074 + HMPREF1058_RS17490 0.18 -1.3
422,087 + HMPREF1058_RS17490 0.19 -1.0
422,145 - HMPREF1058_RS17490 0.23 -0.0
422,167 - HMPREF1058_RS17490 0.24 -1.6
422,234 + HMPREF1058_RS17490 0.29 +1.6
422,269 + HMPREF1058_RS17490 0.31 -0.0
422,315 - HMPREF1058_RS17490 0.34 +0.6
422,315 - HMPREF1058_RS17490 0.34 -2.3
422,405 + -0.0
422,406 - HMPREF1058_RS17490 0.40 +1.6
422,487 + HMPREF1058_RS17490 0.46 -0.8
422,527 - HMPREF1058_RS17490 0.48 -0.9
422,602 - HMPREF1058_RS17490 0.53 +0.6
422,603 + HMPREF1058_RS17490 0.53 +0.6
422,609 + HMPREF1058_RS17490 0.54 +1.0
422,643 - HMPREF1058_RS17490 0.56 +1.2
422,651 + HMPREF1058_RS17490 0.56 -1.6
422,652 - HMPREF1058_RS17490 0.57 -0.4
422,652 - HMPREF1058_RS17490 0.57 -1.9
422,652 - HMPREF1058_RS17490 0.57 +0.3
422,737 - HMPREF1058_RS17490 0.62 -1.6
422,778 + HMPREF1058_RS17490 0.65 +0.7
422,778 + HMPREF1058_RS17490 0.65 -0.9
422,811 + HMPREF1058_RS17490 0.67 -0.6
422,811 + HMPREF1058_RS17490 0.67 -0.4
422,812 - HMPREF1058_RS17490 0.67 +0.4
422,813 + HMPREF1058_RS17490 0.67 +0.9
422,993 - HMPREF1058_RS17490 0.79 -0.6
422,995 - HMPREF1058_RS17490 0.79 +1.5
423,067 - HMPREF1058_RS17490 0.84 +0.1
423,101 + HMPREF1058_RS17490 0.86 -0.2
423,102 - HMPREF1058_RS17490 0.87 -2.3
423,102 - HMPREF1058_RS17490 0.87 -2.2
423,104 + HMPREF1058_RS17490 0.87 -0.1
423,105 - HMPREF1058_RS17490 0.87 +3.0
423,122 + HMPREF1058_RS17490 0.88 -1.0
423,126 - HMPREF1058_RS17490 0.88 -0.0
423,129 + HMPREF1058_RS17490 0.88 -1.6
423,152 - HMPREF1058_RS17490 0.90 -2.2
423,368 - -0.0
423,386 + -0.6
423,463 - -0.5
423,463 - -0.3
423,543 - -3.6
423,556 + +0.9
423,557 - -1.0
423,560 + +1.2
423,602 + -0.0
423,615 - -1.6
423,706 - HMPREF1058_RS17485 0.12 -1.6
423,729 + HMPREF1058_RS17485 0.13 -0.2
423,826 + HMPREF1058_RS17485 0.16 -0.2
423,905 - HMPREF1058_RS17485 0.19 +0.5
423,909 + HMPREF1058_RS17485 0.19 -1.4
423,958 - HMPREF1058_RS17485 0.20 +0.2
423,965 - HMPREF1058_RS17485 0.21 -0.8
424,025 - HMPREF1058_RS17485 0.23 -0.6
424,046 - HMPREF1058_RS17485 0.23 -1.0
424,052 - HMPREF1058_RS17485 0.24 -1.0
424,112 - HMPREF1058_RS17485 0.25 +1.3
424,193 - HMPREF1058_RS17485 0.28 +2.1
424,204 - HMPREF1058_RS17485 0.28 +0.7
424,233 + HMPREF1058_RS17485 0.29 +2.0
424,234 - HMPREF1058_RS17485 0.29 +0.6
424,262 - HMPREF1058_RS17485 0.30 -0.8
424,262 - HMPREF1058_RS17485 0.30 -0.0

Or see this region's nucleotide sequence