Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08370

Experiment: D-Xylose 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_RS08375 and HMPREF1058_RS08370 are separated by 69 nucleotidesHMPREF1058_RS08370 and HMPREF1058_RS08365 are separated by 53 nucleotides HMPREF1058_RS08375: HMPREF1058_RS08375 - RagB/SusD family nutrient uptake outer membrane protein, at 1,176,972 to 1,178,606 _RS08375 HMPREF1058_RS08370: HMPREF1058_RS08370 - DUF5110 domain-containing protein, at 1,178,676 to 1,181,135 _RS08370 HMPREF1058_RS08365: HMPREF1058_RS08365 - glycoside hydrolase family 127 protein, at 1,181,189 to 1,183,540 _RS08365 Position (kb) 1178 1179 1180 1181 1182Strain fitness (log2 ratio) -2 -1 0 1 2 3at 1177.701 kb on - strand, within HMPREF1058_RS08375at 1177.724 kb on + strand, within HMPREF1058_RS08375at 1177.724 kb on + strand, within HMPREF1058_RS08375at 1177.725 kb on - strand, within HMPREF1058_RS08375at 1177.784 kb on - strand, within HMPREF1058_RS08375at 1177.812 kb on - strand, within HMPREF1058_RS08375at 1177.901 kb on + strand, within HMPREF1058_RS08375at 1177.956 kb on - strand, within HMPREF1058_RS08375at 1177.994 kb on + strand, within HMPREF1058_RS08375at 1177.998 kb on + strand, within HMPREF1058_RS08375at 1178.001 kb on - strand, within HMPREF1058_RS08375at 1178.018 kb on + strand, within HMPREF1058_RS08375at 1178.022 kb on + strand, within HMPREF1058_RS08375at 1178.045 kb on + strand, within HMPREF1058_RS08375at 1178.046 kb on - strand, within HMPREF1058_RS08375at 1178.048 kb on + strand, within HMPREF1058_RS08375at 1178.049 kb on - strand, within HMPREF1058_RS08375at 1178.070 kb on + strand, within HMPREF1058_RS08375at 1178.090 kb on + strand, within HMPREF1058_RS08375at 1178.129 kb on + strand, within HMPREF1058_RS08375at 1178.139 kb on + strand, within HMPREF1058_RS08375at 1178.270 kb on - strand, within HMPREF1058_RS08375at 1178.342 kb on - strand, within HMPREF1058_RS08375at 1178.349 kb on + strand, within HMPREF1058_RS08375at 1178.363 kb on + strand, within HMPREF1058_RS08375at 1178.370 kb on - strand, within HMPREF1058_RS08375at 1178.404 kb on - strand, within HMPREF1058_RS08375at 1178.404 kb on - strand, within HMPREF1058_RS08375at 1178.514 kb on - strandat 1178.600 kb on + strandat 1178.607 kb on + strandat 1178.656 kb on - strandat 1178.661 kb on - strandat 1178.776 kb on + strandat 1178.777 kb on - strandat 1178.806 kb on - strandat 1178.829 kb on + strandat 1178.876 kb on - strandat 1178.925 kb on + strand, within HMPREF1058_RS08370at 1178.926 kb on - strand, within HMPREF1058_RS08370at 1178.928 kb on - strand, within HMPREF1058_RS08370at 1178.928 kb on - strand, within HMPREF1058_RS08370at 1178.947 kb on + strand, within HMPREF1058_RS08370at 1178.957 kb on - strand, within HMPREF1058_RS08370at 1178.962 kb on + strand, within HMPREF1058_RS08370at 1178.963 kb on - strand, within HMPREF1058_RS08370at 1178.973 kb on - strand, within HMPREF1058_RS08370at 1178.973 kb on - strand, within HMPREF1058_RS08370at 1179.076 kb on - strand, within HMPREF1058_RS08370at 1179.104 kb on + strand, within HMPREF1058_RS08370at 1179.105 kb on - strand, within HMPREF1058_RS08370at 1179.105 kb on - strand, within HMPREF1058_RS08370at 1179.192 kb on - strand, within HMPREF1058_RS08370at 1179.197 kb on + strand, within HMPREF1058_RS08370at 1179.198 kb on - strand, within HMPREF1058_RS08370at 1179.264 kb on - strand, within HMPREF1058_RS08370at 1179.325 kb on - strand, within HMPREF1058_RS08370at 1179.328 kb on - strand, within HMPREF1058_RS08370at 1179.342 kb on - strand, within HMPREF1058_RS08370at 1179.443 kb on + strand, within HMPREF1058_RS08370at 1179.546 kb on - strand, within HMPREF1058_RS08370at 1179.581 kb on + strand, within HMPREF1058_RS08370at 1179.581 kb on + strand, within HMPREF1058_RS08370at 1179.588 kb on - strand, within HMPREF1058_RS08370at 1179.616 kb on - strand, within HMPREF1058_RS08370at 1179.690 kb on + strand, within HMPREF1058_RS08370at 1179.690 kb on + strand, within HMPREF1058_RS08370at 1179.691 kb on - strand, within HMPREF1058_RS08370at 1179.694 kb on + strand, within HMPREF1058_RS08370at 1179.695 kb on - strand, within HMPREF1058_RS08370at 1179.713 kb on + strand, within HMPREF1058_RS08370at 1179.713 kb on + strand, within HMPREF1058_RS08370at 1179.759 kb on + strand, within HMPREF1058_RS08370at 1179.760 kb on - strandat 1179.764 kb on + strand, within HMPREF1058_RS08370at 1179.860 kb on + strand, within HMPREF1058_RS08370at 1179.888 kb on - strand, within HMPREF1058_RS08370at 1179.982 kb on + strand, within HMPREF1058_RS08370at 1180.028 kb on + strand, within HMPREF1058_RS08370at 1180.075 kb on + strand, within HMPREF1058_RS08370at 1180.081 kb on + strand, within HMPREF1058_RS08370at 1180.081 kb on + strand, within HMPREF1058_RS08370at 1180.209 kb on - strand, within HMPREF1058_RS08370at 1180.216 kb on - strand, within HMPREF1058_RS08370at 1180.271 kb on + strand, within HMPREF1058_RS08370at 1180.281 kb on + strand, within HMPREF1058_RS08370at 1180.306 kb on - strand, within HMPREF1058_RS08370at 1180.329 kb on - strand, within HMPREF1058_RS08370at 1180.329 kb on - strand, within HMPREF1058_RS08370at 1180.371 kb on + strand, within HMPREF1058_RS08370at 1180.371 kb on + strand, within HMPREF1058_RS08370at 1180.420 kb on - strand, within HMPREF1058_RS08370at 1180.441 kb on + strand, within HMPREF1058_RS08370at 1180.449 kb on + strand, within HMPREF1058_RS08370at 1180.454 kb on - strand, within HMPREF1058_RS08370at 1180.454 kb on - strand, within HMPREF1058_RS08370at 1180.455 kb on + strand, within HMPREF1058_RS08370at 1180.460 kb on + strand, within HMPREF1058_RS08370at 1180.464 kb on - strand, within HMPREF1058_RS08370at 1180.464 kb on - strand, within HMPREF1058_RS08370at 1180.558 kb on - strand, within HMPREF1058_RS08370at 1180.559 kb on + strand, within HMPREF1058_RS08370at 1180.605 kb on + strand, within HMPREF1058_RS08370at 1180.607 kb on + strand, within HMPREF1058_RS08370at 1180.608 kb on - strand, within HMPREF1058_RS08370at 1180.608 kb on - strand, within HMPREF1058_RS08370at 1180.674 kb on + strand, within HMPREF1058_RS08370at 1180.753 kb on + strand, within HMPREF1058_RS08370at 1180.777 kb on - strand, within HMPREF1058_RS08370at 1180.941 kb on - strandat 1180.941 kb on - strandat 1180.964 kb on + strandat 1181.039 kb on - strandat 1181.039 kb on - strandat 1181.103 kb on + strandat 1181.164 kb on - strandat 1181.167 kb on + strandat 1181.178 kb on + strandat 1181.184 kb on - strandat 1181.247 kb on + strandat 1181.248 kb on - strandat 1181.358 kb on + strandat 1181.489 kb on + strand, within HMPREF1058_RS08365at 1181.489 kb on + strand, within HMPREF1058_RS08365at 1181.490 kb on - strand, within HMPREF1058_RS08365at 1181.490 kb on - strand, within HMPREF1058_RS08365at 1181.491 kb on + strand, within HMPREF1058_RS08365at 1181.491 kb on + strand, within HMPREF1058_RS08365at 1181.492 kb on - strand, within HMPREF1058_RS08365at 1181.495 kb on + strand, within HMPREF1058_RS08365at 1181.495 kb on + strand, within HMPREF1058_RS08365at 1181.495 kb on + strand, within HMPREF1058_RS08365at 1181.495 kb on + strand, within HMPREF1058_RS08365at 1181.496 kb on - strand, within HMPREF1058_RS08365at 1181.538 kb on - strand, within HMPREF1058_RS08365at 1181.539 kb on + strand, within HMPREF1058_RS08365at 1181.545 kb on - strand, within HMPREF1058_RS08365at 1181.628 kb on + strand, within HMPREF1058_RS08365at 1181.692 kb on + strand, within HMPREF1058_RS08365at 1181.693 kb on - strand, within HMPREF1058_RS08365at 1181.704 kb on - strand, within HMPREF1058_RS08365at 1181.827 kb on + strand, within HMPREF1058_RS08365at 1181.828 kb on - strand, within HMPREF1058_RS08365at 1181.828 kb on - strand, within HMPREF1058_RS08365at 1182.010 kb on - strand, within HMPREF1058_RS08365at 1182.088 kb on - strand, within HMPREF1058_RS08365at 1182.115 kb on + strand, within HMPREF1058_RS08365at 1182.115 kb on + strand, within HMPREF1058_RS08365

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Per-strain Table

Position Strand Gene LocusTag Fraction D-Xylose 10 mM (C)
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1,177,701 - HMPREF1058_RS08375 0.45 +1.0
1,177,724 + HMPREF1058_RS08375 0.46 -0.1
1,177,724 + HMPREF1058_RS08375 0.46 -0.1
1,177,725 - HMPREF1058_RS08375 0.46 -0.1
1,177,784 - HMPREF1058_RS08375 0.50 +0.2
1,177,812 - HMPREF1058_RS08375 0.51 -1.1
1,177,901 + HMPREF1058_RS08375 0.57 -1.3
1,177,956 - HMPREF1058_RS08375 0.60 +1.0
1,177,994 + HMPREF1058_RS08375 0.63 -1.6
1,177,998 + HMPREF1058_RS08375 0.63 -0.1
1,178,001 - HMPREF1058_RS08375 0.63 +0.2
1,178,018 + HMPREF1058_RS08375 0.64 -1.4
1,178,022 + HMPREF1058_RS08375 0.64 +1.0
1,178,045 + HMPREF1058_RS08375 0.66 -0.6
1,178,046 - HMPREF1058_RS08375 0.66 -0.3
1,178,048 + HMPREF1058_RS08375 0.66 -1.4
1,178,049 - HMPREF1058_RS08375 0.66 -1.2
1,178,070 + HMPREF1058_RS08375 0.67 +1.1
1,178,090 + HMPREF1058_RS08375 0.68 -1.8
1,178,129 + HMPREF1058_RS08375 0.71 -0.1
1,178,139 + HMPREF1058_RS08375 0.71 -0.9
1,178,270 - HMPREF1058_RS08375 0.79 +0.4
1,178,342 - HMPREF1058_RS08375 0.84 +0.1
1,178,349 + HMPREF1058_RS08375 0.84 -0.3
1,178,363 + HMPREF1058_RS08375 0.85 -0.3
1,178,370 - HMPREF1058_RS08375 0.86 -0.5
1,178,404 - HMPREF1058_RS08375 0.88 -1.4
1,178,404 - HMPREF1058_RS08375 0.88 -0.6
1,178,514 - +0.0
1,178,600 + +1.4
1,178,607 + +0.3
1,178,656 - +0.8
1,178,661 - -0.8
1,178,776 + -0.3
1,178,777 - -0.5
1,178,806 - -0.4
1,178,829 + -0.4
1,178,876 - +0.2
1,178,925 + HMPREF1058_RS08370 0.10 -0.4
1,178,926 - HMPREF1058_RS08370 0.10 -1.2
1,178,928 - HMPREF1058_RS08370 0.10 -0.8
1,178,928 - HMPREF1058_RS08370 0.10 -0.8
1,178,947 + HMPREF1058_RS08370 0.11 +0.4
1,178,957 - HMPREF1058_RS08370 0.11 +1.0
1,178,962 + HMPREF1058_RS08370 0.12 +1.1
1,178,963 - HMPREF1058_RS08370 0.12 +2.4
1,178,973 - HMPREF1058_RS08370 0.12 -1.1
1,178,973 - HMPREF1058_RS08370 0.12 +0.1
1,179,076 - HMPREF1058_RS08370 0.16 -1.1
1,179,104 + HMPREF1058_RS08370 0.17 -1.5
1,179,105 - HMPREF1058_RS08370 0.17 -0.1
1,179,105 - HMPREF1058_RS08370 0.17 -0.6
1,179,192 - HMPREF1058_RS08370 0.21 +0.2
1,179,197 + HMPREF1058_RS08370 0.21 +0.1
1,179,198 - HMPREF1058_RS08370 0.21 -0.3
1,179,264 - HMPREF1058_RS08370 0.24 +0.1
1,179,325 - HMPREF1058_RS08370 0.26 -1.3
1,179,328 - HMPREF1058_RS08370 0.27 +1.2
1,179,342 - HMPREF1058_RS08370 0.27 -0.6
1,179,443 + HMPREF1058_RS08370 0.31 -0.1
1,179,546 - HMPREF1058_RS08370 0.35 -1.2
1,179,581 + HMPREF1058_RS08370 0.37 -0.1
1,179,581 + HMPREF1058_RS08370 0.37 -1.4
1,179,588 - HMPREF1058_RS08370 0.37 -0.3
1,179,616 - HMPREF1058_RS08370 0.38 -0.1
1,179,690 + HMPREF1058_RS08370 0.41 -1.0
1,179,690 + HMPREF1058_RS08370 0.41 +1.0
1,179,691 - HMPREF1058_RS08370 0.41 -0.9
1,179,694 + HMPREF1058_RS08370 0.41 -0.7
1,179,695 - HMPREF1058_RS08370 0.41 -1.4
1,179,713 + HMPREF1058_RS08370 0.42 -0.4
1,179,713 + HMPREF1058_RS08370 0.42 -0.2
1,179,759 + HMPREF1058_RS08370 0.44 -0.1
1,179,760 - -1.6
1,179,764 + HMPREF1058_RS08370 0.44 +0.5
1,179,860 + HMPREF1058_RS08370 0.48 -0.4
1,179,888 - HMPREF1058_RS08370 0.49 -0.6
1,179,982 + HMPREF1058_RS08370 0.53 -0.7
1,180,028 + HMPREF1058_RS08370 0.55 +0.4
1,180,075 + HMPREF1058_RS08370 0.57 -0.4
1,180,081 + HMPREF1058_RS08370 0.57 -0.2
1,180,081 + HMPREF1058_RS08370 0.57 -0.6
1,180,209 - HMPREF1058_RS08370 0.62 +1.4
1,180,216 - HMPREF1058_RS08370 0.63 -0.4
1,180,271 + HMPREF1058_RS08370 0.65 -1.7
1,180,281 + HMPREF1058_RS08370 0.65 -0.5
1,180,306 - HMPREF1058_RS08370 0.66 -0.5
1,180,329 - HMPREF1058_RS08370 0.67 -1.4
1,180,329 - HMPREF1058_RS08370 0.67 -0.9
1,180,371 + HMPREF1058_RS08370 0.69 +0.6
1,180,371 + HMPREF1058_RS08370 0.69 -0.2
1,180,420 - HMPREF1058_RS08370 0.71 -0.3
1,180,441 + HMPREF1058_RS08370 0.72 -0.1
1,180,449 + HMPREF1058_RS08370 0.72 -1.8
1,180,454 - HMPREF1058_RS08370 0.72 +0.5
1,180,454 - HMPREF1058_RS08370 0.72 +3.4
1,180,455 + HMPREF1058_RS08370 0.72 -0.3
1,180,460 + HMPREF1058_RS08370 0.73 -1.0
1,180,464 - HMPREF1058_RS08370 0.73 -0.7
1,180,464 - HMPREF1058_RS08370 0.73 -0.8
1,180,558 - HMPREF1058_RS08370 0.77 -0.9
1,180,559 + HMPREF1058_RS08370 0.77 -0.4
1,180,605 + HMPREF1058_RS08370 0.78 -0.5
1,180,607 + HMPREF1058_RS08370 0.78 -0.7
1,180,608 - HMPREF1058_RS08370 0.79 -0.3
1,180,608 - HMPREF1058_RS08370 0.79 -1.3
1,180,674 + HMPREF1058_RS08370 0.81 -1.8
1,180,753 + HMPREF1058_RS08370 0.84 +0.1
1,180,777 - HMPREF1058_RS08370 0.85 +0.7
1,180,941 - -1.4
1,180,941 - -0.5
1,180,964 + +0.6
1,181,039 - +0.0
1,181,039 - -1.1
1,181,103 + +1.4
1,181,164 - -0.5
1,181,167 + +0.8
1,181,178 + -0.4
1,181,184 - +0.5
1,181,247 + -1.1
1,181,248 - +0.2
1,181,358 + +0.8
1,181,489 + HMPREF1058_RS08365 0.13 -0.7
1,181,489 + HMPREF1058_RS08365 0.13 -0.1
1,181,490 - HMPREF1058_RS08365 0.13 -0.5
1,181,490 - HMPREF1058_RS08365 0.13 -0.5
1,181,491 + HMPREF1058_RS08365 0.13 -1.7
1,181,491 + HMPREF1058_RS08365 0.13 -0.6
1,181,492 - HMPREF1058_RS08365 0.13 +0.9
1,181,495 + HMPREF1058_RS08365 0.13 -1.0
1,181,495 + HMPREF1058_RS08365 0.13 -1.2
1,181,495 + HMPREF1058_RS08365 0.13 -0.1
1,181,495 + HMPREF1058_RS08365 0.13 +0.0
1,181,496 - HMPREF1058_RS08365 0.13 -0.3
1,181,538 - HMPREF1058_RS08365 0.15 +0.2
1,181,539 + HMPREF1058_RS08365 0.15 -0.3
1,181,545 - HMPREF1058_RS08365 0.15 -1.2
1,181,628 + HMPREF1058_RS08365 0.19 +0.3
1,181,692 + HMPREF1058_RS08365 0.21 -2.2
1,181,693 - HMPREF1058_RS08365 0.21 -0.2
1,181,704 - HMPREF1058_RS08365 0.22 -0.2
1,181,827 + HMPREF1058_RS08365 0.27 -0.0
1,181,828 - HMPREF1058_RS08365 0.27 +2.0
1,181,828 - HMPREF1058_RS08365 0.27 +0.3
1,182,010 - HMPREF1058_RS08365 0.35 +0.0
1,182,088 - HMPREF1058_RS08365 0.38 +0.2
1,182,115 + HMPREF1058_RS08365 0.39 +0.8
1,182,115 + HMPREF1058_RS08365 0.39 +1.4

Or see this region's nucleotide sequence