Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS06645

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4

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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_RS06650 and HMPREF1058_RS06645 are separated by 240 nucleotidesHMPREF1058_RS06645 and HMPREF1058_RS06640 are separated by 7 nucleotides HMPREF1058_RS06650: HMPREF1058_RS06650 - xylose isomerase, at 427,163 to 428,479 _RS06650 HMPREF1058_RS06645: HMPREF1058_RS06645 - SLBB domain-containing protein, at 428,720 to 431,212 _RS06645 HMPREF1058_RS06640: HMPREF1058_RS06640 - chain-length determining protein, at 431,220 to 432,359 _RS06640 Position (kb) 428 429 430 431 432Strain fitness (log2 ratio) -5 -4 -3 -2 -1 0 1 2 3at 427.748 kb on + strand, within HMPREF1058_RS06650at 427.750 kb on + strand, within HMPREF1058_RS06650at 427.843 kb on + strand, within HMPREF1058_RS06650at 427.844 kb on - strand, within HMPREF1058_RS06650at 427.895 kb on + strand, within HMPREF1058_RS06650at 427.985 kb on - strand, within HMPREF1058_RS06650at 428.000 kb on - strand, within HMPREF1058_RS06650at 428.207 kb on - strand, within HMPREF1058_RS06650at 428.328 kb on - strand, within HMPREF1058_RS06650at 428.392 kb on - strandat 428.392 kb on - strandat 428.430 kb on + strandat 428.430 kb on + strandat 428.463 kb on + strandat 428.467 kb on + strandat 428.467 kb on + strandat 428.471 kb on + strandat 428.471 kb on + strandat 428.494 kb on + strandat 428.531 kb on + strandat 428.577 kb on + strandat 428.625 kb on - strandat 428.651 kb on - strandat 428.679 kb on + strandat 428.700 kb on - strandat 428.734 kb on - strandat 428.734 kb on - strandat 428.948 kb on - strandat 429.013 kb on + strand, within HMPREF1058_RS06645at 429.017 kb on + strand, within HMPREF1058_RS06645at 429.017 kb on + strand, within HMPREF1058_RS06645at 429.035 kb on - strand, within HMPREF1058_RS06645at 429.110 kb on + strand, within HMPREF1058_RS06645at 429.194 kb on - strand, within HMPREF1058_RS06645at 429.229 kb on + strand, within HMPREF1058_RS06645at 429.229 kb on + strand, within HMPREF1058_RS06645at 429.234 kb on - strand, within HMPREF1058_RS06645at 429.269 kb on - strand, within HMPREF1058_RS06645at 429.367 kb on + strand, within HMPREF1058_RS06645at 429.386 kb on + strand, within HMPREF1058_RS06645at 429.386 kb on + strand, within HMPREF1058_RS06645at 429.394 kb on + strand, within HMPREF1058_RS06645at 429.413 kb on + strand, within HMPREF1058_RS06645at 429.460 kb on + strand, within HMPREF1058_RS06645at 429.524 kb on + strand, within HMPREF1058_RS06645at 429.606 kb on + strand, within HMPREF1058_RS06645at 429.607 kb on - strand, within HMPREF1058_RS06645at 429.612 kb on + strand, within HMPREF1058_RS06645at 429.642 kb on + strand, within HMPREF1058_RS06645at 429.642 kb on + strand, within HMPREF1058_RS06645at 429.650 kb on + strand, within HMPREF1058_RS06645at 429.658 kb on + strand, within HMPREF1058_RS06645at 429.745 kb on - strand, within HMPREF1058_RS06645at 429.756 kb on + strand, within HMPREF1058_RS06645at 429.842 kb on + strand, within HMPREF1058_RS06645at 429.842 kb on + strand, within HMPREF1058_RS06645at 429.922 kb on - strand, within HMPREF1058_RS06645at 430.022 kb on + strand, within HMPREF1058_RS06645at 430.045 kb on + strand, within HMPREF1058_RS06645at 430.046 kb on - strand, within HMPREF1058_RS06645at 430.046 kb on - strand, within HMPREF1058_RS06645at 430.081 kb on + strand, within HMPREF1058_RS06645at 430.156 kb on - strand, within HMPREF1058_RS06645at 430.160 kb on - strand, within HMPREF1058_RS06645at 430.161 kb on + strand, within HMPREF1058_RS06645at 430.162 kb on - strand, within HMPREF1058_RS06645at 430.162 kb on - strand, within HMPREF1058_RS06645at 430.195 kb on - strand, within HMPREF1058_RS06645at 430.195 kb on - strand, within HMPREF1058_RS06645at 430.268 kb on + strand, within HMPREF1058_RS06645at 430.328 kb on - strand, within HMPREF1058_RS06645at 430.330 kb on + strand, within HMPREF1058_RS06645at 430.330 kb on + strand, within HMPREF1058_RS06645at 430.332 kb on + strand, within HMPREF1058_RS06645at 430.442 kb on + strand, within HMPREF1058_RS06645at 430.442 kb on + strand, within HMPREF1058_RS06645at 430.515 kb on + strand, within HMPREF1058_RS06645at 430.515 kb on + strand, within HMPREF1058_RS06645at 430.517 kb on + strand, within HMPREF1058_RS06645at 430.518 kb on - strand, within HMPREF1058_RS06645at 430.518 kb on - strand, within HMPREF1058_RS06645at 430.525 kb on + strand, within HMPREF1058_RS06645at 430.666 kb on + strand, within HMPREF1058_RS06645at 430.718 kb on - strand, within HMPREF1058_RS06645at 430.789 kb on + strand, within HMPREF1058_RS06645at 430.794 kb on - strand, within HMPREF1058_RS06645at 430.794 kb on - strand, within HMPREF1058_RS06645at 430.796 kb on + strand, within HMPREF1058_RS06645at 430.797 kb on - strand, within HMPREF1058_RS06645at 430.890 kb on - strand, within HMPREF1058_RS06645at 430.903 kb on - strand, within HMPREF1058_RS06645at 430.967 kb on + strandat 430.972 kb on + strandat 430.972 kb on + strandat 430.973 kb on - strandat 430.974 kb on + strandat 431.022 kb on - strandat 431.028 kb on + strandat 431.033 kb on - strandat 431.180 kb on - strandat 431.180 kb on - strandat 431.180 kb on - strandat 431.191 kb on + strandat 431.191 kb on + strandat 431.197 kb on + strandat 431.205 kb on + strandat 431.246 kb on + strandat 431.306 kb on + strandat 431.351 kb on - strand, within HMPREF1058_RS06640at 431.357 kb on + strand, within HMPREF1058_RS06640at 431.397 kb on + strand, within HMPREF1058_RS06640at 431.399 kb on + strand, within HMPREF1058_RS06640at 431.400 kb on - strand, within HMPREF1058_RS06640at 431.521 kb on + strand, within HMPREF1058_RS06640at 431.539 kb on + strand, within HMPREF1058_RS06640at 431.539 kb on + strand, within HMPREF1058_RS06640at 431.539 kb on + strand, within HMPREF1058_RS06640at 431.540 kb on - strand, within HMPREF1058_RS06640at 431.540 kb on - strand, within HMPREF1058_RS06640at 431.540 kb on - strand, within HMPREF1058_RS06640at 431.610 kb on - strand, within HMPREF1058_RS06640at 431.621 kb on - strand, within HMPREF1058_RS06640at 431.626 kb on - strand, within HMPREF1058_RS06640at 431.911 kb on - strand, within HMPREF1058_RS06640at 431.970 kb on + strand, within HMPREF1058_RS06640at 431.971 kb on - strand, within HMPREF1058_RS06640at 431.991 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.994 kb on + strand, within HMPREF1058_RS06640at 431.995 kb on - strand, within HMPREF1058_RS06640at 431.995 kb on - strand, within HMPREF1058_RS06640at 432.012 kb on + strand, within HMPREF1058_RS06640at 432.012 kb on + strand, within HMPREF1058_RS06640at 432.102 kb on + strand, within HMPREF1058_RS06640at 432.103 kb on - strand, within HMPREF1058_RS06640at 432.111 kb on + strand, within HMPREF1058_RS06640at 432.111 kb on + strand, within HMPREF1058_RS06640at 432.112 kb on - strand, within HMPREF1058_RS06640at 432.112 kb on - strand, within HMPREF1058_RS06640at 432.113 kb on + strand, within HMPREF1058_RS06640

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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427,748 + HMPREF1058_RS06650 0.44 +1.0
427,750 + HMPREF1058_RS06650 0.45 -1.6
427,843 + HMPREF1058_RS06650 0.52 -0.6
427,844 - HMPREF1058_RS06650 0.52 -1.5
427,895 + HMPREF1058_RS06650 0.56 -2.6
427,985 - HMPREF1058_RS06650 0.62 -1.0
428,000 - HMPREF1058_RS06650 0.64 +0.5
428,207 - HMPREF1058_RS06650 0.79 -2.0
428,328 - HMPREF1058_RS06650 0.88 -1.8
428,392 - -0.0
428,392 - -1.0
428,430 + -3.7
428,430 + -2.8
428,463 + -2.7
428,467 + -3.8
428,467 + -1.6
428,471 + -0.0
428,471 + -0.7
428,494 + +1.6
428,531 + +1.6
428,577 + -2.0
428,625 - -0.0
428,651 - -2.4
428,679 + +1.1
428,700 - -3.6
428,734 - +2.0
428,734 - -1.0
428,948 - -2.0
429,013 + HMPREF1058_RS06645 0.12 -0.0
429,017 + HMPREF1058_RS06645 0.12 -2.8
429,017 + HMPREF1058_RS06645 0.12 -1.6
429,035 - HMPREF1058_RS06645 0.13 -0.4
429,110 + HMPREF1058_RS06645 0.16 -3.5
429,194 - HMPREF1058_RS06645 0.19 -1.4
429,229 + HMPREF1058_RS06645 0.20 -3.5
429,229 + HMPREF1058_RS06645 0.20 -2.0
429,234 - HMPREF1058_RS06645 0.21 -2.0
429,269 - HMPREF1058_RS06645 0.22 -3.3
429,367 + HMPREF1058_RS06645 0.26 -2.7
429,386 + HMPREF1058_RS06645 0.27 -3.7
429,386 + HMPREF1058_RS06645 0.27 -4.3
429,394 + HMPREF1058_RS06645 0.27 -1.6
429,413 + HMPREF1058_RS06645 0.28 -2.3
429,460 + HMPREF1058_RS06645 0.30 -3.8
429,524 + HMPREF1058_RS06645 0.32 -3.5
429,606 + HMPREF1058_RS06645 0.36 -1.2
429,607 - HMPREF1058_RS06645 0.36 -1.0
429,612 + HMPREF1058_RS06645 0.36 -1.6
429,642 + HMPREF1058_RS06645 0.37 -2.2
429,642 + HMPREF1058_RS06645 0.37 -4.3
429,650 + HMPREF1058_RS06645 0.37 -3.8
429,658 + HMPREF1058_RS06645 0.38 -2.3
429,745 - HMPREF1058_RS06645 0.41 -1.6
429,756 + HMPREF1058_RS06645 0.42 -2.0
429,842 + HMPREF1058_RS06645 0.45 -2.3
429,842 + HMPREF1058_RS06645 0.45 -3.2
429,922 - HMPREF1058_RS06645 0.48 -4.3
430,022 + HMPREF1058_RS06645 0.52 -3.0
430,045 + HMPREF1058_RS06645 0.53 -1.4
430,046 - HMPREF1058_RS06645 0.53 -3.2
430,046 - HMPREF1058_RS06645 0.53 -0.8
430,081 + HMPREF1058_RS06645 0.55 -2.0
430,156 - HMPREF1058_RS06645 0.58 -2.2
430,160 - HMPREF1058_RS06645 0.58 -1.0
430,161 + HMPREF1058_RS06645 0.58 -3.7
430,162 - HMPREF1058_RS06645 0.58 -3.0
430,162 - HMPREF1058_RS06645 0.58 -0.0
430,195 - HMPREF1058_RS06645 0.59 -1.0
430,195 - HMPREF1058_RS06645 0.59 -2.8
430,268 + HMPREF1058_RS06645 0.62 -3.5
430,328 - HMPREF1058_RS06645 0.65 -2.3
430,330 + HMPREF1058_RS06645 0.65 -1.0
430,330 + HMPREF1058_RS06645 0.65 -4.7
430,332 + HMPREF1058_RS06645 0.65 -2.8
430,442 + HMPREF1058_RS06645 0.69 -2.6
430,442 + HMPREF1058_RS06645 0.69 -2.8
430,515 + HMPREF1058_RS06645 0.72 -3.9
430,515 + HMPREF1058_RS06645 0.72 -1.6
430,517 + HMPREF1058_RS06645 0.72 -1.0
430,518 - HMPREF1058_RS06645 0.72 +1.2
430,518 - HMPREF1058_RS06645 0.72 -1.0
430,525 + HMPREF1058_RS06645 0.72 -2.2
430,666 + HMPREF1058_RS06645 0.78 -2.6
430,718 - HMPREF1058_RS06645 0.80 -3.5
430,789 + HMPREF1058_RS06645 0.83 -2.0
430,794 - HMPREF1058_RS06645 0.83 -3.2
430,794 - HMPREF1058_RS06645 0.83 -0.8
430,796 + HMPREF1058_RS06645 0.83 -1.6
430,797 - HMPREF1058_RS06645 0.83 -4.2
430,890 - HMPREF1058_RS06645 0.87 -1.0
430,903 - HMPREF1058_RS06645 0.88 -2.0
430,967 + -3.3
430,972 + -2.3
430,972 + +2.0
430,973 - -3.9
430,974 + -1.6
431,022 - -1.6
431,028 + -2.3
431,033 - -4.0
431,180 - -2.0
431,180 - -2.0
431,180 - -4.8
431,191 + -2.8
431,191 + -3.0
431,197 + -1.7
431,205 + +2.8
431,246 + -3.0
431,306 + -3.2
431,351 - HMPREF1058_RS06640 0.11 -1.0
431,357 + HMPREF1058_RS06640 0.12 -0.6
431,397 + HMPREF1058_RS06640 0.16 -1.6
431,399 + HMPREF1058_RS06640 0.16 -1.7
431,400 - HMPREF1058_RS06640 0.16 -3.6
431,521 + HMPREF1058_RS06640 0.26 -1.6
431,539 + HMPREF1058_RS06640 0.28 -3.7
431,539 + HMPREF1058_RS06640 0.28 -2.0
431,539 + HMPREF1058_RS06640 0.28 -3.0
431,540 - HMPREF1058_RS06640 0.28 -1.6
431,540 - HMPREF1058_RS06640 0.28 -3.0
431,540 - HMPREF1058_RS06640 0.28 -2.0
431,610 - HMPREF1058_RS06640 0.34 -3.3
431,621 - HMPREF1058_RS06640 0.35 -2.6
431,626 - HMPREF1058_RS06640 0.36 -3.6
431,911 - HMPREF1058_RS06640 0.61 -3.2
431,970 + HMPREF1058_RS06640 0.66 -3.8
431,971 - HMPREF1058_RS06640 0.66 -1.3
431,991 + HMPREF1058_RS06640 0.68 -3.2
431,994 + HMPREF1058_RS06640 0.68 -1.1
431,994 + HMPREF1058_RS06640 0.68 -2.1
431,994 + HMPREF1058_RS06640 0.68 -0.7
431,994 + HMPREF1058_RS06640 0.68 -1.6
431,995 - HMPREF1058_RS06640 0.68 -2.8
431,995 - HMPREF1058_RS06640 0.68 -0.9
432,012 + HMPREF1058_RS06640 0.69 -3.2
432,012 + HMPREF1058_RS06640 0.69 -1.6
432,102 + HMPREF1058_RS06640 0.77 -2.6
432,103 - HMPREF1058_RS06640 0.77 -3.8
432,111 + HMPREF1058_RS06640 0.78 -2.6
432,111 + HMPREF1058_RS06640 0.78 -2.8
432,112 - HMPREF1058_RS06640 0.78 -1.6
432,112 - HMPREF1058_RS06640 0.78 -0.0
432,113 + HMPREF1058_RS06640 0.78 -2.0

Or see this region's nucleotide sequence