Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS11880

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse17; day1

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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_RS11885 and HMPREF1058_RS11880 are separated by 327 nucleotidesHMPREF1058_RS11880 and HMPREF1058_RS11875 are separated by 88 nucleotides HMPREF1058_RS11885: HMPREF1058_RS11885 - site-specific integrase, at 253,508 to 254,626 _RS11885 HMPREF1058_RS11880: HMPREF1058_RS11880 - hypothetical protein, at 254,954 to 258,082 _RS11880 HMPREF1058_RS11875: HMPREF1058_RS11875 - hypothetical protein, at 258,171 to 259,286 _RS11875 Position (kb) 254 255 256 257 258 259Strain fitness (log2 ratio) -2 -1 0 1at 254.038 kb on + strand, within HMPREF1058_RS11885at 254.148 kb on + strand, within HMPREF1058_RS11885at 254.200 kb on - strand, within HMPREF1058_RS11885at 254.216 kb on - strand, within HMPREF1058_RS11885at 254.216 kb on - strand, within HMPREF1058_RS11885at 254.216 kb on - strand, within HMPREF1058_RS11885at 254.248 kb on + strand, within HMPREF1058_RS11885at 254.249 kb on - strand, within HMPREF1058_RS11885at 254.254 kb on - strand, within HMPREF1058_RS11885at 254.338 kb on + strand, within HMPREF1058_RS11885at 254.338 kb on + strand, within HMPREF1058_RS11885at 254.339 kb on - strand, within HMPREF1058_RS11885at 254.426 kb on - strand, within HMPREF1058_RS11885at 254.552 kb on + strandat 254.560 kb on + strandat 254.590 kb on - strandat 254.618 kb on + strandat 254.648 kb on + strandat 254.673 kb on + strandat 254.673 kb on + strandat 254.706 kb on - strandat 255.021 kb on + strandat 255.022 kb on - strandat 255.036 kb on - strandat 255.069 kb on + strandat 255.111 kb on + strandat 255.125 kb on + strandat 255.139 kb on + strandat 255.140 kb on - strandat 255.268 kb on + strand, within HMPREF1058_RS11880at 255.284 kb on + strand, within HMPREF1058_RS11880at 255.288 kb on + strand, within HMPREF1058_RS11880at 255.288 kb on + strand, within HMPREF1058_RS11880at 255.324 kb on + strand, within HMPREF1058_RS11880at 255.324 kb on + strand, within HMPREF1058_RS11880at 255.336 kb on - strand, within HMPREF1058_RS11880at 255.376 kb on + strand, within HMPREF1058_RS11880at 255.376 kb on + strand, within HMPREF1058_RS11880at 255.385 kb on - strand, within HMPREF1058_RS11880at 255.397 kb on + strand, within HMPREF1058_RS11880at 255.398 kb on - strand, within HMPREF1058_RS11880at 255.398 kb on - strand, within HMPREF1058_RS11880at 255.491 kb on - strand, within HMPREF1058_RS11880at 255.585 kb on + strand, within HMPREF1058_RS11880at 255.599 kb on - strand, within HMPREF1058_RS11880at 255.645 kb on - strand, within HMPREF1058_RS11880at 255.645 kb on - strand, within HMPREF1058_RS11880at 255.645 kb on - strand, within HMPREF1058_RS11880at 255.695 kb on + strand, within HMPREF1058_RS11880at 255.696 kb on - strand, within HMPREF1058_RS11880at 255.742 kb on + strand, within HMPREF1058_RS11880at 255.743 kb on - strand, within HMPREF1058_RS11880at 255.743 kb on - strand, within HMPREF1058_RS11880at 255.808 kb on - strand, within HMPREF1058_RS11880at 255.810 kb on - strand, within HMPREF1058_RS11880at 255.895 kb on - strand, within HMPREF1058_RS11880at 255.976 kb on - strand, within HMPREF1058_RS11880at 255.980 kb on + strand, within HMPREF1058_RS11880at 256.045 kb on + strand, within HMPREF1058_RS11880at 256.059 kb on - strand, within HMPREF1058_RS11880at 256.069 kb on + strand, within HMPREF1058_RS11880at 256.075 kb on + strand, within HMPREF1058_RS11880at 256.104 kb on + strand, within HMPREF1058_RS11880at 256.106 kb on + strand, within HMPREF1058_RS11880at 256.106 kb on + strand, within HMPREF1058_RS11880at 256.109 kb on - strand, within HMPREF1058_RS11880at 256.126 kb on + strand, within HMPREF1058_RS11880at 256.126 kb on + strand, within HMPREF1058_RS11880at 256.226 kb on - strand, within HMPREF1058_RS11880at 256.281 kb on - strand, within HMPREF1058_RS11880at 256.489 kb on + strand, within HMPREF1058_RS11880at 256.495 kb on - strand, within HMPREF1058_RS11880at 256.499 kb on - strand, within HMPREF1058_RS11880at 256.591 kb on + strand, within HMPREF1058_RS11880at 256.591 kb on + strand, within HMPREF1058_RS11880at 256.626 kb on + strand, within HMPREF1058_RS11880at 256.645 kb on - strand, within HMPREF1058_RS11880at 256.728 kb on + strand, within HMPREF1058_RS11880at 256.728 kb on + strand, within HMPREF1058_RS11880at 256.728 kb on + strand, within HMPREF1058_RS11880at 256.728 kb on + strand, within HMPREF1058_RS11880at 256.729 kb on - strand, within HMPREF1058_RS11880at 256.730 kb on + strand, within HMPREF1058_RS11880at 256.730 kb on + strand, within HMPREF1058_RS11880at 256.865 kb on - strand, within HMPREF1058_RS11880at 256.875 kb on - strand, within HMPREF1058_RS11880at 256.875 kb on - strand, within HMPREF1058_RS11880at 256.918 kb on + strand, within HMPREF1058_RS11880at 256.922 kb on + strand, within HMPREF1058_RS11880at 256.922 kb on + strand, within HMPREF1058_RS11880at 256.923 kb on - strand, within HMPREF1058_RS11880at 256.923 kb on - strand, within HMPREF1058_RS11880at 256.923 kb on - strand, within HMPREF1058_RS11880at 256.923 kb on - strand, within HMPREF1058_RS11880at 256.923 kb on - strand, within HMPREF1058_RS11880at 256.924 kb on + strand, within HMPREF1058_RS11880at 256.925 kb on - strand, within HMPREF1058_RS11880at 256.925 kb on - strand, within HMPREF1058_RS11880at 256.925 kb on - strand, within HMPREF1058_RS11880at 256.927 kb on + strand, within HMPREF1058_RS11880at 256.928 kb on - strand, within HMPREF1058_RS11880at 256.995 kb on - strand, within HMPREF1058_RS11880at 257.097 kb on - strand, within HMPREF1058_RS11880at 257.134 kb on + strand, within HMPREF1058_RS11880at 257.135 kb on - strand, within HMPREF1058_RS11880at 257.135 kb on - strand, within HMPREF1058_RS11880at 257.164 kb on + strand, within HMPREF1058_RS11880at 257.237 kb on + strand, within HMPREF1058_RS11880at 257.238 kb on - strand, within HMPREF1058_RS11880at 257.357 kb on + strand, within HMPREF1058_RS11880at 257.358 kb on - strand, within HMPREF1058_RS11880at 257.358 kb on - strand, within HMPREF1058_RS11880at 257.358 kb on - strand, within HMPREF1058_RS11880at 257.362 kb on + strand, within HMPREF1058_RS11880at 257.397 kb on - strand, within HMPREF1058_RS11880at 257.402 kb on - strand, within HMPREF1058_RS11880at 257.412 kb on - strand, within HMPREF1058_RS11880at 257.434 kb on + strand, within HMPREF1058_RS11880at 257.440 kb on + strand, within HMPREF1058_RS11880at 257.473 kb on + strand, within HMPREF1058_RS11880at 257.474 kb on - strand, within HMPREF1058_RS11880at 257.483 kb on + strand, within HMPREF1058_RS11880at 257.483 kb on + strand, within HMPREF1058_RS11880at 257.484 kb on - strand, within HMPREF1058_RS11880at 257.484 kb on - strand, within HMPREF1058_RS11880at 257.484 kb on - strand, within HMPREF1058_RS11880at 257.484 kb on - strand, within HMPREF1058_RS11880at 257.566 kb on - strand, within HMPREF1058_RS11880at 257.594 kb on + strand, within HMPREF1058_RS11880at 257.595 kb on - strand, within HMPREF1058_RS11880at 257.603 kb on + strand, within HMPREF1058_RS11880at 257.620 kb on + strand, within HMPREF1058_RS11880at 257.625 kb on + strand, within HMPREF1058_RS11880at 257.657 kb on + strand, within HMPREF1058_RS11880at 257.657 kb on + strand, within HMPREF1058_RS11880at 257.658 kb on - strand, within HMPREF1058_RS11880at 257.704 kb on + strand, within HMPREF1058_RS11880at 257.705 kb on - strand, within HMPREF1058_RS11880at 257.708 kb on + strand, within HMPREF1058_RS11880at 257.709 kb on - strand, within HMPREF1058_RS11880at 257.799 kb on + strandat 257.813 kb on - strandat 257.914 kb on + strandat 257.941 kb on + strandat 257.968 kb on - strandat 257.968 kb on - strandat 258.162 kb on - strandat 258.163 kb on + strandat 258.164 kb on - strandat 258.171 kb on - strandat 258.177 kb on + strandat 258.178 kb on - strandat 258.179 kb on + strandat 258.180 kb on - strandat 258.181 kb on + strandat 258.181 kb on + strandat 258.181 kb on + strandat 258.181 kb on + strandat 258.182 kb on - strandat 258.183 kb on + strandat 258.183 kb on + strandat 258.183 kb on + strandat 258.184 kb on - strandat 258.206 kb on - strandat 258.209 kb on - strandat 258.209 kb on - strandat 258.262 kb on + strandat 258.360 kb on - strand, within HMPREF1058_RS11875at 258.361 kb on + strand, within HMPREF1058_RS11875at 258.364 kb on + strand, within HMPREF1058_RS11875at 258.365 kb on - strand, within HMPREF1058_RS11875at 258.387 kb on - strand, within HMPREF1058_RS11875at 258.445 kb on + strand, within HMPREF1058_RS11875at 258.445 kb on + strand, within HMPREF1058_RS11875at 258.445 kb on + strand, within HMPREF1058_RS11875at 258.446 kb on - strand, within HMPREF1058_RS11875at 258.449 kb on + strand, within HMPREF1058_RS11875at 258.450 kb on - strand, within HMPREF1058_RS11875at 258.581 kb on + strand, within HMPREF1058_RS11875at 258.582 kb on - strand, within HMPREF1058_RS11875at 258.582 kb on - strand, within HMPREF1058_RS11875at 258.698 kb on + strand, within HMPREF1058_RS11875at 258.710 kb on + strand, within HMPREF1058_RS11875at 258.723 kb on + strand, within HMPREF1058_RS11875at 258.723 kb on + strand, within HMPREF1058_RS11875at 258.738 kb on - strand, within HMPREF1058_RS11875at 258.747 kb on + strand, within HMPREF1058_RS11875at 258.747 kb on + strand, within HMPREF1058_RS11875at 258.747 kb on + strand, within HMPREF1058_RS11875at 258.747 kb on + strand, within HMPREF1058_RS11875at 258.748 kb on - strand, within HMPREF1058_RS11875at 258.749 kb on + strand, within HMPREF1058_RS11875at 258.750 kb on - strand, within HMPREF1058_RS11875at 258.772 kb on + strand, within HMPREF1058_RS11875at 258.795 kb on - strand, within HMPREF1058_RS11875at 258.799 kb on - strand, within HMPREF1058_RS11875at 258.799 kb on - strand, within HMPREF1058_RS11875at 258.917 kb on - strand, within HMPREF1058_RS11875at 258.920 kb on - strand, within HMPREF1058_RS11875at 259.066 kb on - strand, within HMPREF1058_RS11875

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=Mono; mouse17; day1
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254,038 + HMPREF1058_RS11885 0.47 -0.0
254,148 + HMPREF1058_RS11885 0.57 -0.6
254,200 - HMPREF1058_RS11885 0.62 -0.2
254,216 - HMPREF1058_RS11885 0.63 -0.1
254,216 - HMPREF1058_RS11885 0.63 +0.8
254,216 - HMPREF1058_RS11885 0.63 +0.5
254,248 + HMPREF1058_RS11885 0.66 +0.6
254,249 - HMPREF1058_RS11885 0.66 -0.5
254,254 - HMPREF1058_RS11885 0.67 -0.0
254,338 + HMPREF1058_RS11885 0.74 -0.3
254,338 + HMPREF1058_RS11885 0.74 -1.7
254,339 - HMPREF1058_RS11885 0.74 +0.1
254,426 - HMPREF1058_RS11885 0.82 +0.3
254,552 + +0.4
254,560 + +0.6
254,590 - -0.2
254,618 + -0.4
254,648 + -1.1
254,673 + -0.3
254,673 + -0.1
254,706 - -0.7
255,021 + +1.0
255,022 - -1.2
255,036 - +0.5
255,069 + -0.4
255,111 + -0.1
255,125 + +0.6
255,139 + +0.4
255,140 - +0.8
255,268 + HMPREF1058_RS11880 0.10 -0.2
255,284 + HMPREF1058_RS11880 0.11 +0.8
255,288 + HMPREF1058_RS11880 0.11 -0.0
255,288 + HMPREF1058_RS11880 0.11 +0.2
255,324 + HMPREF1058_RS11880 0.12 +0.9
255,324 + HMPREF1058_RS11880 0.12 +0.4
255,336 - HMPREF1058_RS11880 0.12 +1.3
255,376 + HMPREF1058_RS11880 0.13 +0.8
255,376 + HMPREF1058_RS11880 0.13 +0.4
255,385 - HMPREF1058_RS11880 0.14 +0.1
255,397 + HMPREF1058_RS11880 0.14 +0.1
255,398 - HMPREF1058_RS11880 0.14 -0.1
255,398 - HMPREF1058_RS11880 0.14 +1.3
255,491 - HMPREF1058_RS11880 0.17 -0.6
255,585 + HMPREF1058_RS11880 0.20 +0.1
255,599 - HMPREF1058_RS11880 0.21 +0.2
255,645 - HMPREF1058_RS11880 0.22 +0.6
255,645 - HMPREF1058_RS11880 0.22 +1.5
255,645 - HMPREF1058_RS11880 0.22 +0.5
255,695 + HMPREF1058_RS11880 0.24 +0.3
255,696 - HMPREF1058_RS11880 0.24 +0.7
255,742 + HMPREF1058_RS11880 0.25 -0.0
255,743 - HMPREF1058_RS11880 0.25 +0.6
255,743 - HMPREF1058_RS11880 0.25 +0.9
255,808 - HMPREF1058_RS11880 0.27 +0.9
255,810 - HMPREF1058_RS11880 0.27 +0.6
255,895 - HMPREF1058_RS11880 0.30 +0.5
255,976 - HMPREF1058_RS11880 0.33 +0.5
255,980 + HMPREF1058_RS11880 0.33 +0.9
256,045 + HMPREF1058_RS11880 0.35 -0.2
256,059 - HMPREF1058_RS11880 0.35 +0.6
256,069 + HMPREF1058_RS11880 0.36 +0.5
256,075 + HMPREF1058_RS11880 0.36 +0.2
256,104 + HMPREF1058_RS11880 0.37 +0.4
256,106 + HMPREF1058_RS11880 0.37 -0.1
256,106 + HMPREF1058_RS11880 0.37 +0.7
256,109 - HMPREF1058_RS11880 0.37 -0.2
256,126 + HMPREF1058_RS11880 0.37 -0.1
256,126 + HMPREF1058_RS11880 0.37 +0.3
256,226 - HMPREF1058_RS11880 0.41 +0.6
256,281 - HMPREF1058_RS11880 0.42 +0.7
256,489 + HMPREF1058_RS11880 0.49 +0.4
256,495 - HMPREF1058_RS11880 0.49 +0.0
256,499 - HMPREF1058_RS11880 0.49 +1.0
256,591 + HMPREF1058_RS11880 0.52 +0.4
256,591 + HMPREF1058_RS11880 0.52 -0.9
256,626 + HMPREF1058_RS11880 0.53 +0.3
256,645 - HMPREF1058_RS11880 0.54 +0.4
256,728 + HMPREF1058_RS11880 0.57 +0.8
256,728 + HMPREF1058_RS11880 0.57 +0.3
256,728 + HMPREF1058_RS11880 0.57 +0.6
256,728 + HMPREF1058_RS11880 0.57 +0.5
256,729 - HMPREF1058_RS11880 0.57 +0.3
256,730 + HMPREF1058_RS11880 0.57 +0.3
256,730 + HMPREF1058_RS11880 0.57 -0.3
256,865 - HMPREF1058_RS11880 0.61 +0.1
256,875 - HMPREF1058_RS11880 0.61 +1.1
256,875 - HMPREF1058_RS11880 0.61 +1.0
256,918 + HMPREF1058_RS11880 0.63 +0.0
256,922 + HMPREF1058_RS11880 0.63 +0.3
256,922 + HMPREF1058_RS11880 0.63 +0.0
256,923 - HMPREF1058_RS11880 0.63 -0.0
256,923 - HMPREF1058_RS11880 0.63 -0.2
256,923 - HMPREF1058_RS11880 0.63 +0.8
256,923 - HMPREF1058_RS11880 0.63 +0.3
256,923 - HMPREF1058_RS11880 0.63 +0.6
256,924 + HMPREF1058_RS11880 0.63 +0.2
256,925 - HMPREF1058_RS11880 0.63 +0.1
256,925 - HMPREF1058_RS11880 0.63 +0.3
256,925 - HMPREF1058_RS11880 0.63 -0.1
256,927 + HMPREF1058_RS11880 0.63 -0.4
256,928 - HMPREF1058_RS11880 0.63 +0.6
256,995 - HMPREF1058_RS11880 0.65 +0.1
257,097 - HMPREF1058_RS11880 0.68 +0.2
257,134 + HMPREF1058_RS11880 0.70 +0.4
257,135 - HMPREF1058_RS11880 0.70 -0.2
257,135 - HMPREF1058_RS11880 0.70 +0.7
257,164 + HMPREF1058_RS11880 0.71 +0.7
257,237 + HMPREF1058_RS11880 0.73 +0.0
257,238 - HMPREF1058_RS11880 0.73 -0.5
257,357 + HMPREF1058_RS11880 0.77 +0.0
257,358 - HMPREF1058_RS11880 0.77 +0.8
257,358 - HMPREF1058_RS11880 0.77 +0.6
257,358 - HMPREF1058_RS11880 0.77 +0.4
257,362 + HMPREF1058_RS11880 0.77 -0.4
257,397 - HMPREF1058_RS11880 0.78 -0.1
257,402 - HMPREF1058_RS11880 0.78 +0.6
257,412 - HMPREF1058_RS11880 0.79 +0.5
257,434 + HMPREF1058_RS11880 0.79 +1.1
257,440 + HMPREF1058_RS11880 0.79 +0.3
257,473 + HMPREF1058_RS11880 0.81 +0.7
257,474 - HMPREF1058_RS11880 0.81 -0.3
257,483 + HMPREF1058_RS11880 0.81 +0.5
257,483 + HMPREF1058_RS11880 0.81 -1.3
257,484 - HMPREF1058_RS11880 0.81 +0.5
257,484 - HMPREF1058_RS11880 0.81 -0.0
257,484 - HMPREF1058_RS11880 0.81 +0.1
257,484 - HMPREF1058_RS11880 0.81 +0.5
257,566 - HMPREF1058_RS11880 0.83 +0.5
257,594 + HMPREF1058_RS11880 0.84 +0.1
257,595 - HMPREF1058_RS11880 0.84 +0.0
257,603 + HMPREF1058_RS11880 0.85 -0.4
257,620 + HMPREF1058_RS11880 0.85 +0.5
257,625 + HMPREF1058_RS11880 0.85 -0.1
257,657 + HMPREF1058_RS11880 0.86 +0.8
257,657 + HMPREF1058_RS11880 0.86 +0.1
257,658 - HMPREF1058_RS11880 0.86 +0.8
257,704 + HMPREF1058_RS11880 0.88 +0.4
257,705 - HMPREF1058_RS11880 0.88 +0.6
257,708 + HMPREF1058_RS11880 0.88 +0.1
257,709 - HMPREF1058_RS11880 0.88 +0.5
257,799 + +1.2
257,813 - -0.1
257,914 + +1.3
257,941 + +0.2
257,968 - +0.5
257,968 - +0.0
258,162 - -0.5
258,163 + -1.2
258,164 - -0.3
258,171 - +1.4
258,177 + -0.1
258,178 - -0.1
258,179 + -0.1
258,180 - -0.3
258,181 + -0.3
258,181 + -0.6
258,181 + -0.8
258,181 + -0.4
258,182 - +0.3
258,183 + -0.4
258,183 + -0.5
258,183 + -1.0
258,184 - -0.4
258,206 - -0.2
258,209 - +1.2
258,209 - -0.6
258,262 + -0.5
258,360 - HMPREF1058_RS11875 0.17 -0.0
258,361 + HMPREF1058_RS11875 0.17 -0.2
258,364 + HMPREF1058_RS11875 0.17 -1.1
258,365 - HMPREF1058_RS11875 0.17 +1.2
258,387 - HMPREF1058_RS11875 0.19 -0.2
258,445 + HMPREF1058_RS11875 0.25 +0.6
258,445 + HMPREF1058_RS11875 0.25 -0.1
258,445 + HMPREF1058_RS11875 0.25 -0.7
258,446 - HMPREF1058_RS11875 0.25 -2.6
258,449 + HMPREF1058_RS11875 0.25 -0.5
258,450 - HMPREF1058_RS11875 0.25 -0.1
258,581 + HMPREF1058_RS11875 0.37 +0.4
258,582 - HMPREF1058_RS11875 0.37 +0.0
258,582 - HMPREF1058_RS11875 0.37 -0.5
258,698 + HMPREF1058_RS11875 0.47 -0.8
258,710 + HMPREF1058_RS11875 0.48 +0.5
258,723 + HMPREF1058_RS11875 0.49 -0.8
258,723 + HMPREF1058_RS11875 0.49 +0.2
258,738 - HMPREF1058_RS11875 0.51 -0.1
258,747 + HMPREF1058_RS11875 0.52 +0.2
258,747 + HMPREF1058_RS11875 0.52 +0.4
258,747 + HMPREF1058_RS11875 0.52 -0.8
258,747 + HMPREF1058_RS11875 0.52 +0.8
258,748 - HMPREF1058_RS11875 0.52 -0.0
258,749 + HMPREF1058_RS11875 0.52 -0.6
258,750 - HMPREF1058_RS11875 0.52 +0.4
258,772 + HMPREF1058_RS11875 0.54 +0.2
258,795 - HMPREF1058_RS11875 0.56 +0.0
258,799 - HMPREF1058_RS11875 0.56 -0.5
258,799 - HMPREF1058_RS11875 0.56 -0.7
258,917 - HMPREF1058_RS11875 0.67 -1.2
258,920 - HMPREF1058_RS11875 0.67 +0.2
259,066 - HMPREF1058_RS11875 0.80 -0.2

Or see this region's nucleotide sequence