Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS16590

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse11; day3

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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_RS16600 and HMPREF1058_RS16595 overlap by 17 nucleotidesHMPREF1058_RS16595 and HMPREF1058_RS16590 are separated by 20 nucleotidesHMPREF1058_RS16590 and HMPREF1058_RS16585 are separated by 38 nucleotides HMPREF1058_RS16600: HMPREF1058_RS16600 - PepSY-associated TM helix domain-containing protein, at 637,419 to 637,994 _RS16600 HMPREF1058_RS16595: HMPREF1058_RS16595 - hypothetical protein, at 637,978 to 638,562 _RS16595 HMPREF1058_RS16590: HMPREF1058_RS16590 - hypothetical protein, at 638,583 to 640,133 _RS16590 HMPREF1058_RS16585: HMPREF1058_RS16585 - DUF4876 domain-containing protein, at 640,172 to 641,386 _RS16585 Position (kb) 638 639 640 641Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 637.642 kb on + strand, within HMPREF1058_RS16600at 637.737 kb on - strand, within HMPREF1058_RS16600at 637.790 kb on + strand, within HMPREF1058_RS16600at 637.790 kb on + strand, within HMPREF1058_RS16600at 637.826 kb on + strand, within HMPREF1058_RS16600at 637.841 kb on + strand, within HMPREF1058_RS16600at 637.847 kb on + strand, within HMPREF1058_RS16600at 637.847 kb on + strand, within HMPREF1058_RS16600at 637.848 kb on - strand, within HMPREF1058_RS16600at 637.848 kb on - strand, within HMPREF1058_RS16600at 637.860 kb on + strand, within HMPREF1058_RS16600at 637.973 kb on + strandat 637.979 kb on + strandat 638.011 kb on - strandat 638.016 kb on - strandat 638.016 kb on - strandat 638.204 kb on + strand, within HMPREF1058_RS16595at 638.364 kb on + strand, within HMPREF1058_RS16595at 638.364 kb on + strand, within HMPREF1058_RS16595at 638.365 kb on - strand, within HMPREF1058_RS16595at 638.511 kb on + strandat 638.512 kb on - strandat 638.637 kb on - strandat 638.676 kb on - strandat 638.723 kb on + strandat 638.726 kb on + strandat 638.728 kb on + strandat 638.728 kb on + strandat 638.728 kb on + strandat 638.728 kb on + strandat 638.728 kb on + strandat 638.740 kb on - strand, within HMPREF1058_RS16590at 638.744 kb on - strand, within HMPREF1058_RS16590at 638.827 kb on + strand, within HMPREF1058_RS16590at 638.875 kb on + strand, within HMPREF1058_RS16590at 638.876 kb on - strand, within HMPREF1058_RS16590at 638.962 kb on + strand, within HMPREF1058_RS16590at 638.962 kb on + strand, within HMPREF1058_RS16590at 638.963 kb on - strand, within HMPREF1058_RS16590at 638.963 kb on - strand, within HMPREF1058_RS16590at 638.963 kb on - strand, within HMPREF1058_RS16590at 638.963 kb on - strand, within HMPREF1058_RS16590at 638.967 kb on + strand, within HMPREF1058_RS16590at 638.967 kb on + strand, within HMPREF1058_RS16590at 638.968 kb on - strand, within HMPREF1058_RS16590at 639.077 kb on + strand, within HMPREF1058_RS16590at 639.078 kb on - strand, within HMPREF1058_RS16590at 639.082 kb on - strand, within HMPREF1058_RS16590at 639.143 kb on + strand, within HMPREF1058_RS16590at 639.285 kb on - strand, within HMPREF1058_RS16590at 639.342 kb on + strand, within HMPREF1058_RS16590at 639.342 kb on + strand, within HMPREF1058_RS16590at 639.406 kb on + strand, within HMPREF1058_RS16590at 639.407 kb on - strand, within HMPREF1058_RS16590at 639.428 kb on + strand, within HMPREF1058_RS16590at 639.428 kb on + strand, within HMPREF1058_RS16590at 639.433 kb on + strand, within HMPREF1058_RS16590at 639.572 kb on + strand, within HMPREF1058_RS16590at 639.605 kb on + strand, within HMPREF1058_RS16590at 639.765 kb on + strand, within HMPREF1058_RS16590at 639.942 kb on + strand, within HMPREF1058_RS16590at 639.943 kb on - strand, within HMPREF1058_RS16590at 639.944 kb on + strand, within HMPREF1058_RS16590at 639.955 kb on + strand, within HMPREF1058_RS16590at 639.956 kb on - strand, within HMPREF1058_RS16590at 639.959 kb on - strand, within HMPREF1058_RS16590at 639.962 kb on - strand, within HMPREF1058_RS16590at 640.110 kb on - strandat 640.137 kb on + strandat 640.152 kb on + strandat 640.152 kb on + strandat 640.225 kb on + strandat 640.241 kb on + strandat 640.242 kb on - strandat 640.326 kb on + strand, within HMPREF1058_RS16585at 640.327 kb on - strand, within HMPREF1058_RS16585at 640.327 kb on - strand, within HMPREF1058_RS16585at 640.327 kb on - strand, within HMPREF1058_RS16585at 640.330 kb on + strand, within HMPREF1058_RS16585at 640.331 kb on - strand, within HMPREF1058_RS16585at 640.358 kb on + strand, within HMPREF1058_RS16585at 640.395 kb on - strand, within HMPREF1058_RS16585at 640.429 kb on - strand, within HMPREF1058_RS16585at 640.468 kb on + strand, within HMPREF1058_RS16585at 640.469 kb on - strand, within HMPREF1058_RS16585at 640.471 kb on - strand, within HMPREF1058_RS16585at 640.471 kb on - strand, within HMPREF1058_RS16585at 640.474 kb on + strand, within HMPREF1058_RS16585at 640.474 kb on + strand, within HMPREF1058_RS16585at 640.475 kb on - strand, within HMPREF1058_RS16585at 640.475 kb on - strand, within HMPREF1058_RS16585at 640.475 kb on - strand, within HMPREF1058_RS16585at 640.477 kb on - strand, within HMPREF1058_RS16585at 640.482 kb on + strand, within HMPREF1058_RS16585at 640.488 kb on + strand, within HMPREF1058_RS16585at 640.489 kb on - strand, within HMPREF1058_RS16585at 640.499 kb on - strand, within HMPREF1058_RS16585at 640.516 kb on + strand, within HMPREF1058_RS16585at 640.537 kb on + strand, within HMPREF1058_RS16585at 640.588 kb on - strand, within HMPREF1058_RS16585at 640.594 kb on - strand, within HMPREF1058_RS16585at 640.594 kb on - strandat 640.604 kb on + strand, within HMPREF1058_RS16585at 640.650 kb on + strand, within HMPREF1058_RS16585at 640.650 kb on + strand, within HMPREF1058_RS16585at 640.673 kb on + strand, within HMPREF1058_RS16585at 640.702 kb on + strand, within HMPREF1058_RS16585at 640.781 kb on + strand, within HMPREF1058_RS16585at 640.837 kb on - strand, within HMPREF1058_RS16585at 640.867 kb on + strand, within HMPREF1058_RS16585at 640.872 kb on - strand, within HMPREF1058_RS16585at 640.907 kb on - strand, within HMPREF1058_RS16585at 640.911 kb on + strand, within HMPREF1058_RS16585at 640.915 kb on + strand, within HMPREF1058_RS16585at 640.915 kb on + strand, within HMPREF1058_RS16585at 640.916 kb on - strand, within HMPREF1058_RS16585at 640.920 kb on - strand, within HMPREF1058_RS16585at 640.920 kb on - strand, within HMPREF1058_RS16585at 640.920 kb on - strand, within HMPREF1058_RS16585at 640.920 kb on - strand, within HMPREF1058_RS16585at 640.920 kb on - strand, within HMPREF1058_RS16585at 640.920 kb on - strand, within HMPREF1058_RS16585at 640.938 kb on + strand, within HMPREF1058_RS16585at 640.938 kb on + strand, within HMPREF1058_RS16585at 640.960 kb on - strand, within HMPREF1058_RS16585at 640.973 kb on - strand, within HMPREF1058_RS16585at 640.976 kb on + strand, within HMPREF1058_RS16585at 641.015 kb on + strand, within HMPREF1058_RS16585at 641.041 kb on - strand, within HMPREF1058_RS16585at 641.055 kb on - strand, within HMPREF1058_RS16585at 641.082 kb on - strand, within HMPREF1058_RS16585at 641.082 kb on - strand, within HMPREF1058_RS16585at 641.116 kb on - strand, within HMPREF1058_RS16585

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse11; day3
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637,642 + HMPREF1058_RS16600 0.39 +2.2
637,737 - HMPREF1058_RS16600 0.55 +0.2
637,790 + HMPREF1058_RS16600 0.64 -0.7
637,790 + HMPREF1058_RS16600 0.64 -1.1
637,826 + HMPREF1058_RS16600 0.71 +3.2
637,841 + HMPREF1058_RS16600 0.73 -1.3
637,847 + HMPREF1058_RS16600 0.74 -0.3
637,847 + HMPREF1058_RS16600 0.74 -0.8
637,848 - HMPREF1058_RS16600 0.74 -0.0
637,848 - HMPREF1058_RS16600 0.74 +0.8
637,860 + HMPREF1058_RS16600 0.77 -1.8
637,973 + +0.2
637,979 + -0.5
638,011 - +0.2
638,016 - -0.8
638,016 - -0.5
638,204 + HMPREF1058_RS16595 0.39 -1.0
638,364 + HMPREF1058_RS16595 0.66 -2.8
638,364 + HMPREF1058_RS16595 0.66 +0.2
638,365 - HMPREF1058_RS16595 0.66 -1.5
638,511 + +1.0
638,512 - +2.7
638,637 - -0.8
638,676 - -0.5
638,723 + -2.8
638,726 + -1.2
638,728 + -2.3
638,728 + +0.8
638,728 + -1.5
638,728 + +0.5
638,728 + +0.2
638,740 - HMPREF1058_RS16590 0.10 -2.2
638,744 - HMPREF1058_RS16590 0.10 -1.6
638,827 + HMPREF1058_RS16590 0.16 -1.5
638,875 + HMPREF1058_RS16590 0.19 +0.8
638,876 - HMPREF1058_RS16590 0.19 -2.8
638,962 + HMPREF1058_RS16590 0.24 +1.7
638,962 + HMPREF1058_RS16590 0.24 +0.6
638,963 - HMPREF1058_RS16590 0.25 +1.2
638,963 - HMPREF1058_RS16590 0.25 +0.9
638,963 - HMPREF1058_RS16590 0.25 +0.2
638,963 - HMPREF1058_RS16590 0.25 -0.8
638,967 + HMPREF1058_RS16590 0.25 -2.2
638,967 + HMPREF1058_RS16590 0.25 +1.5
638,968 - HMPREF1058_RS16590 0.25 -2.6
639,077 + HMPREF1058_RS16590 0.32 +0.4
639,078 - HMPREF1058_RS16590 0.32 +0.6
639,082 - HMPREF1058_RS16590 0.32 -0.7
639,143 + HMPREF1058_RS16590 0.36 -2.2
639,285 - HMPREF1058_RS16590 0.45 -0.3
639,342 + HMPREF1058_RS16590 0.49 +3.7
639,342 + HMPREF1058_RS16590 0.49 +0.7
639,406 + HMPREF1058_RS16590 0.53 +1.2
639,407 - HMPREF1058_RS16590 0.53 -1.4
639,428 + HMPREF1058_RS16590 0.54 +0.8
639,428 + HMPREF1058_RS16590 0.54 +0.2
639,433 + HMPREF1058_RS16590 0.55 -2.7
639,572 + HMPREF1058_RS16590 0.64 +0.8
639,605 + HMPREF1058_RS16590 0.66 -0.4
639,765 + HMPREF1058_RS16590 0.76 +1.4
639,942 + HMPREF1058_RS16590 0.88 -4.2
639,943 - HMPREF1058_RS16590 0.88 -0.1
639,944 + HMPREF1058_RS16590 0.88 +0.2
639,955 + HMPREF1058_RS16590 0.88 +1.7
639,956 - HMPREF1058_RS16590 0.89 -0.7
639,959 - HMPREF1058_RS16590 0.89 -0.0
639,962 - HMPREF1058_RS16590 0.89 +4.7
640,110 - -0.8
640,137 + +1.4
640,152 + +0.6
640,152 + +3.9
640,225 + +1.7
640,241 + -3.8
640,242 - +0.7
640,326 + HMPREF1058_RS16585 0.13 +0.2
640,327 - HMPREF1058_RS16585 0.13 +1.2
640,327 - HMPREF1058_RS16585 0.13 -0.0
640,327 - HMPREF1058_RS16585 0.13 +1.5
640,330 + HMPREF1058_RS16585 0.13 +0.5
640,331 - HMPREF1058_RS16585 0.13 +0.6
640,358 + HMPREF1058_RS16585 0.15 -0.8
640,395 - HMPREF1058_RS16585 0.18 -0.6
640,429 - HMPREF1058_RS16585 0.21 -1.3
640,468 + HMPREF1058_RS16585 0.24 -0.8
640,469 - HMPREF1058_RS16585 0.24 -3.2
640,471 - HMPREF1058_RS16585 0.25 +0.8
640,471 - HMPREF1058_RS16585 0.25 +0.4
640,474 + HMPREF1058_RS16585 0.25 +1.5
640,474 + HMPREF1058_RS16585 0.25 +0.2
640,475 - HMPREF1058_RS16585 0.25 -0.4
640,475 - HMPREF1058_RS16585 0.25 -3.4
640,475 - HMPREF1058_RS16585 0.25 -0.8
640,477 - HMPREF1058_RS16585 0.25 +1.4
640,482 + HMPREF1058_RS16585 0.26 +0.3
640,488 + HMPREF1058_RS16585 0.26 -2.2
640,489 - HMPREF1058_RS16585 0.26 +1.7
640,499 - HMPREF1058_RS16585 0.27 +1.7
640,516 + HMPREF1058_RS16585 0.28 +1.6
640,537 + HMPREF1058_RS16585 0.30 -1.4
640,588 - HMPREF1058_RS16585 0.34 -0.3
640,594 - HMPREF1058_RS16585 0.35 +1.2
640,594 - -0.8
640,604 + HMPREF1058_RS16585 0.36 +1.5
640,650 + HMPREF1058_RS16585 0.39 +0.6
640,650 + HMPREF1058_RS16585 0.39 +0.3
640,673 + HMPREF1058_RS16585 0.41 +0.3
640,702 + HMPREF1058_RS16585 0.44 -0.1
640,781 + HMPREF1058_RS16585 0.50 +1.2
640,837 - HMPREF1058_RS16585 0.55 +3.0
640,867 + HMPREF1058_RS16585 0.57 -0.5
640,872 - HMPREF1058_RS16585 0.58 +0.5
640,907 - HMPREF1058_RS16585 0.60 -0.6
640,911 + HMPREF1058_RS16585 0.61 +0.3
640,915 + HMPREF1058_RS16585 0.61 -1.3
640,915 + HMPREF1058_RS16585 0.61 +1.0
640,916 - HMPREF1058_RS16585 0.61 +1.0
640,920 - HMPREF1058_RS16585 0.62 +0.5
640,920 - HMPREF1058_RS16585 0.62 -1.0
640,920 - HMPREF1058_RS16585 0.62 -0.3
640,920 - HMPREF1058_RS16585 0.62 +1.3
640,920 - HMPREF1058_RS16585 0.62 +0.3
640,920 - HMPREF1058_RS16585 0.62 +1.7
640,938 + HMPREF1058_RS16585 0.63 -1.7
640,938 + HMPREF1058_RS16585 0.63 -2.2
640,960 - HMPREF1058_RS16585 0.65 -0.4
640,973 - HMPREF1058_RS16585 0.66 -0.4
640,976 + HMPREF1058_RS16585 0.66 +0.2
641,015 + HMPREF1058_RS16585 0.69 -3.8
641,041 - HMPREF1058_RS16585 0.72 +0.7
641,055 - HMPREF1058_RS16585 0.73 +2.3
641,082 - HMPREF1058_RS16585 0.75 +0.2
641,082 - HMPREF1058_RS16585 0.75 +0.1
641,116 - HMPREF1058_RS16585 0.78 -0.1

Or see this region's nucleotide sequence