Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS06085

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_RS06090 and HMPREF1058_RS06085 are separated by 62 nucleotidesHMPREF1058_RS06085 and HMPREF1058_RS06080 are separated by 175 nucleotides HMPREF1058_RS06090: HMPREF1058_RS06090 - TolC family protein, at 5,050 to 6,483 _RS06090 HMPREF1058_RS06085: HMPREF1058_RS06085 - hypothetical protein, at 6,546 to 8,744 _RS06085 HMPREF1058_RS06080: HMPREF1058_RS06080 - glutamine synthetase III, at 8,920 to 11,109 _RS06080 Position (kb) 6 7 8 9Strain fitness (log2 ratio) -6 -5 -4 -3 -2 -1 0 1 2 3 4at 5.559 kb on + strand, within HMPREF1058_RS06090at 5.559 kb on + strand, within HMPREF1058_RS06090at 5.560 kb on - strand, within HMPREF1058_RS06090at 5.623 kb on + strand, within HMPREF1058_RS06090at 5.623 kb on + strand, within HMPREF1058_RS06090at 5.624 kb on - strand, within HMPREF1058_RS06090at 5.624 kb on - strand, within HMPREF1058_RS06090at 5.626 kb on + strand, within HMPREF1058_RS06090at 5.627 kb on - strand, within HMPREF1058_RS06090at 5.630 kb on + strand, within HMPREF1058_RS06090at 5.661 kb on - strand, within HMPREF1058_RS06090at 5.812 kb on - strand, within HMPREF1058_RS06090at 5.845 kb on + strand, within HMPREF1058_RS06090at 5.845 kb on + strand, within HMPREF1058_RS06090at 6.115 kb on + strand, within HMPREF1058_RS06090at 6.129 kb on + strand, within HMPREF1058_RS06090at 6.145 kb on + strand, within HMPREF1058_RS06090at 6.145 kb on + strand, within HMPREF1058_RS06090at 6.146 kb on - strand, within HMPREF1058_RS06090at 6.146 kb on - strand, within HMPREF1058_RS06090at 6.146 kb on - strand, within HMPREF1058_RS06090at 6.146 kb on - strand, within HMPREF1058_RS06090at 6.148 kb on - strand, within HMPREF1058_RS06090at 6.169 kb on - strand, within HMPREF1058_RS06090at 6.174 kb on + strand, within HMPREF1058_RS06090at 6.220 kb on - strand, within HMPREF1058_RS06090at 6.270 kb on - strand, within HMPREF1058_RS06090at 6.334 kb on + strand, within HMPREF1058_RS06090at 6.335 kb on - strand, within HMPREF1058_RS06090at 6.335 kb on - strand, within HMPREF1058_RS06090at 6.335 kb on - strand, within HMPREF1058_RS06090at 6.336 kb on + strand, within HMPREF1058_RS06090at 6.337 kb on - strand, within HMPREF1058_RS06090at 6.340 kb on + strandat 6.340 kb on + strandat 6.415 kb on + strandat 6.463 kb on + strandat 6.484 kb on - strandat 6.503 kb on - strandat 6.503 kb on - strandat 6.513 kb on - strandat 6.513 kb on - strandat 6.554 kb on + strandat 6.587 kb on + strandat 6.635 kb on + strandat 6.636 kb on - strandat 6.667 kb on + strandat 6.668 kb on - strandat 6.675 kb on - strandat 6.704 kb on - strandat 6.758 kb on + strandat 6.772 kb on + strand, within HMPREF1058_RS06085at 6.773 kb on - strand, within HMPREF1058_RS06085at 6.810 kb on - strand, within HMPREF1058_RS06085at 6.911 kb on + strand, within HMPREF1058_RS06085at 6.912 kb on - strand, within HMPREF1058_RS06085at 6.990 kb on + strand, within HMPREF1058_RS06085at 6.990 kb on + strand, within HMPREF1058_RS06085at 6.991 kb on - strand, within HMPREF1058_RS06085at 7.023 kb on - strand, within HMPREF1058_RS06085at 7.086 kb on + strand, within HMPREF1058_RS06085at 7.086 kb on + strand, within HMPREF1058_RS06085at 7.086 kb on + strand, within HMPREF1058_RS06085at 7.087 kb on - strand, within HMPREF1058_RS06085at 7.117 kb on + strand, within HMPREF1058_RS06085at 7.120 kb on + strand, within HMPREF1058_RS06085at 7.120 kb on + strand, within HMPREF1058_RS06085at 7.120 kb on + strand, within HMPREF1058_RS06085at 7.120 kb on + strand, within HMPREF1058_RS06085at 7.121 kb on - strand, within HMPREF1058_RS06085at 7.142 kb on + strand, within HMPREF1058_RS06085at 7.143 kb on - strand, within HMPREF1058_RS06085at 7.146 kb on + strand, within HMPREF1058_RS06085at 7.147 kb on - strand, within HMPREF1058_RS06085at 7.164 kb on - strand, within HMPREF1058_RS06085at 7.283 kb on + strand, within HMPREF1058_RS06085at 7.284 kb on - strand, within HMPREF1058_RS06085at 7.299 kb on + strand, within HMPREF1058_RS06085at 7.306 kb on - strand, within HMPREF1058_RS06085at 7.343 kb on - strand, within HMPREF1058_RS06085at 7.373 kb on + strand, within HMPREF1058_RS06085at 7.373 kb on + strand, within HMPREF1058_RS06085at 7.416 kb on - strand, within HMPREF1058_RS06085at 7.416 kb on - strand, within HMPREF1058_RS06085at 7.416 kb on - strand, within HMPREF1058_RS06085at 7.417 kb on + strand, within HMPREF1058_RS06085at 7.418 kb on - strand, within HMPREF1058_RS06085at 7.418 kb on - strand, within HMPREF1058_RS06085at 7.418 kb on - strand, within HMPREF1058_RS06085at 7.418 kb on - strand, within HMPREF1058_RS06085at 7.418 kb on - strand, within HMPREF1058_RS06085at 7.420 kb on - strand, within HMPREF1058_RS06085at 7.420 kb on - strand, within HMPREF1058_RS06085at 7.511 kb on + strand, within HMPREF1058_RS06085at 7.531 kb on - strand, within HMPREF1058_RS06085at 7.547 kb on + strand, within HMPREF1058_RS06085at 7.548 kb on - strand, within HMPREF1058_RS06085at 7.579 kb on + strand, within HMPREF1058_RS06085at 7.584 kb on - strand, within HMPREF1058_RS06085at 7.595 kb on + strand, within HMPREF1058_RS06085at 7.597 kb on + strand, within HMPREF1058_RS06085at 7.598 kb on - strand, within HMPREF1058_RS06085at 7.797 kb on - strand, within HMPREF1058_RS06085at 7.935 kb on - strand, within HMPREF1058_RS06085at 7.955 kb on - strand, within HMPREF1058_RS06085at 8.013 kb on + strand, within HMPREF1058_RS06085at 8.014 kb on - strand, within HMPREF1058_RS06085at 8.113 kb on + strand, within HMPREF1058_RS06085at 8.114 kb on - strand, within HMPREF1058_RS06085at 8.114 kb on - strand, within HMPREF1058_RS06085at 8.148 kb on + strand, within HMPREF1058_RS06085at 8.148 kb on + strand, within HMPREF1058_RS06085at 8.168 kb on + strand, within HMPREF1058_RS06085at 8.169 kb on - strand, within HMPREF1058_RS06085at 8.169 kb on - strand, within HMPREF1058_RS06085at 8.169 kb on - strand, within HMPREF1058_RS06085at 8.208 kb on - strand, within HMPREF1058_RS06085at 8.250 kb on - strand, within HMPREF1058_RS06085at 8.250 kb on - strand, within HMPREF1058_RS06085at 8.272 kb on + strand, within HMPREF1058_RS06085at 8.273 kb on - strand, within HMPREF1058_RS06085at 8.273 kb on - strand, within HMPREF1058_RS06085at 8.333 kb on - strand, within HMPREF1058_RS06085at 8.337 kb on - strand, within HMPREF1058_RS06085at 8.381 kb on + strand, within HMPREF1058_RS06085at 8.415 kb on - strand, within HMPREF1058_RS06085at 8.422 kb on + strand, within HMPREF1058_RS06085at 8.422 kb on + strand, within HMPREF1058_RS06085at 8.423 kb on - strand, within HMPREF1058_RS06085at 8.423 kb on - strand, within HMPREF1058_RS06085at 8.427 kb on - strandat 8.438 kb on + strand, within HMPREF1058_RS06085at 8.439 kb on - strand, within HMPREF1058_RS06085at 8.508 kb on + strand, within HMPREF1058_RS06085at 8.509 kb on - strand, within HMPREF1058_RS06085at 8.509 kb on - strand, within HMPREF1058_RS06085at 8.538 kb on + strandat 8.560 kb on + strandat 8.562 kb on + strandat 8.563 kb on - strandat 8.575 kb on + strandat 8.575 kb on + strandat 8.692 kb on - strandat 8.715 kb on - strandat 8.733 kb on + strandat 8.733 kb on + strandat 8.734 kb on - strandat 8.736 kb on - strandat 8.738 kb on - strandat 8.738 kb on - strandat 8.738 kb on - strandat 8.779 kb on + strandat 8.813 kb on + strandat 8.817 kb on + strandat 8.946 kb on - strandat 8.983 kb on + strandat 9.070 kb on - strandat 9.070 kb on - strandat 9.178 kb on + strand, within HMPREF1058_RS06080at 9.263 kb on + strand, within HMPREF1058_RS06080at 9.412 kb on - strand, within HMPREF1058_RS06080at 9.420 kb on + strand, within HMPREF1058_RS06080at 9.433 kb on + strand, within HMPREF1058_RS06080at 9.571 kb on + strand, within HMPREF1058_RS06080at 9.571 kb on + strand, within HMPREF1058_RS06080at 9.596 kb on - strand, within HMPREF1058_RS06080at 9.596 kb on - strand, within HMPREF1058_RS06080at 9.597 kb on + strand, within HMPREF1058_RS06080at 9.598 kb on - strandat 9.680 kb on - strand, within HMPREF1058_RS06080

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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5,559 + HMPREF1058_RS06090 0.35 +1.1
5,559 + HMPREF1058_RS06090 0.35 +1.8
5,560 - HMPREF1058_RS06090 0.36 -0.0
5,623 + HMPREF1058_RS06090 0.40 -1.2
5,623 + HMPREF1058_RS06090 0.40 +0.7
5,624 - HMPREF1058_RS06090 0.40 +1.0
5,624 - HMPREF1058_RS06090 0.40 -1.6
5,626 + HMPREF1058_RS06090 0.40 -0.9
5,627 - HMPREF1058_RS06090 0.40 -0.9
5,630 + HMPREF1058_RS06090 0.40 -0.3
5,661 - HMPREF1058_RS06090 0.43 -1.0
5,812 - HMPREF1058_RS06090 0.53 -0.0
5,845 + HMPREF1058_RS06090 0.55 -2.3
5,845 + HMPREF1058_RS06090 0.55 +0.3
6,115 + HMPREF1058_RS06090 0.74 +1.8
6,129 + HMPREF1058_RS06090 0.75 -0.0
6,145 + HMPREF1058_RS06090 0.76 -0.6
6,145 + HMPREF1058_RS06090 0.76 -0.3
6,146 - HMPREF1058_RS06090 0.76 -0.0
6,146 - HMPREF1058_RS06090 0.76 +0.5
6,146 - HMPREF1058_RS06090 0.76 -0.5
6,146 - HMPREF1058_RS06090 0.76 -2.0
6,148 - HMPREF1058_RS06090 0.77 -0.4
6,169 - HMPREF1058_RS06090 0.78 -1.6
6,174 + HMPREF1058_RS06090 0.78 -2.3
6,220 - HMPREF1058_RS06090 0.82 +0.7
6,270 - HMPREF1058_RS06090 0.85 -0.6
6,334 + HMPREF1058_RS06090 0.90 -1.3
6,335 - HMPREF1058_RS06090 0.90 -0.5
6,335 - HMPREF1058_RS06090 0.90 +1.1
6,335 - HMPREF1058_RS06090 0.90 +0.5
6,336 + HMPREF1058_RS06090 0.90 -2.3
6,337 - HMPREF1058_RS06090 0.90 +1.6
6,340 + +0.6
6,340 + -1.0
6,415 + +1.2
6,463 + +1.1
6,484 - +0.7
6,503 - +0.1
6,503 - -0.0
6,513 - -0.6
6,513 - -1.8
6,554 + -2.6
6,587 + -2.0
6,635 + -1.6
6,636 - -2.0
6,667 + -3.6
6,668 - -2.3
6,675 - -3.2
6,704 - -4.9
6,758 + -3.5
6,772 + HMPREF1058_RS06085 0.10 -3.8
6,773 - HMPREF1058_RS06085 0.10 -2.8
6,810 - HMPREF1058_RS06085 0.12 -0.0
6,911 + HMPREF1058_RS06085 0.17 -2.0
6,912 - HMPREF1058_RS06085 0.17 -4.2
6,990 + HMPREF1058_RS06085 0.20 -3.2
6,990 + HMPREF1058_RS06085 0.20 -1.6
6,991 - HMPREF1058_RS06085 0.20 -5.1
7,023 - HMPREF1058_RS06085 0.22 -4.9
7,086 + HMPREF1058_RS06085 0.25 -3.7
7,086 + HMPREF1058_RS06085 0.25 -3.0
7,086 + HMPREF1058_RS06085 0.25 -4.1
7,087 - HMPREF1058_RS06085 0.25 -2.3
7,117 + HMPREF1058_RS06085 0.26 -2.0
7,120 + HMPREF1058_RS06085 0.26 -0.0
7,120 + HMPREF1058_RS06085 0.26 -0.0
7,120 + HMPREF1058_RS06085 0.26 -3.7
7,120 + HMPREF1058_RS06085 0.26 -0.0
7,121 - HMPREF1058_RS06085 0.26 -2.8
7,142 + HMPREF1058_RS06085 0.27 -4.2
7,143 - HMPREF1058_RS06085 0.27 -3.0
7,146 + HMPREF1058_RS06085 0.27 -0.0
7,147 - HMPREF1058_RS06085 0.27 -1.6
7,164 - HMPREF1058_RS06085 0.28 -6.1
7,283 + HMPREF1058_RS06085 0.34 -1.0
7,284 - HMPREF1058_RS06085 0.34 -2.0
7,299 + HMPREF1058_RS06085 0.34 -2.6
7,306 - HMPREF1058_RS06085 0.35 -2.6
7,343 - HMPREF1058_RS06085 0.36 -1.6
7,373 + HMPREF1058_RS06085 0.38 -3.7
7,373 + HMPREF1058_RS06085 0.38 -1.6
7,416 - HMPREF1058_RS06085 0.40 -3.5
7,416 - HMPREF1058_RS06085 0.40 -5.3
7,416 - HMPREF1058_RS06085 0.40 -3.0
7,417 + HMPREF1058_RS06085 0.40 -1.0
7,418 - HMPREF1058_RS06085 0.40 -3.5
7,418 - HMPREF1058_RS06085 0.40 -2.0
7,418 - HMPREF1058_RS06085 0.40 -0.0
7,418 - HMPREF1058_RS06085 0.40 -5.2
7,418 - HMPREF1058_RS06085 0.40 -3.0
7,420 - HMPREF1058_RS06085 0.40 -3.2
7,420 - HMPREF1058_RS06085 0.40 -3.8
7,511 + HMPREF1058_RS06085 0.44 -2.3
7,531 - HMPREF1058_RS06085 0.45 -2.3
7,547 + HMPREF1058_RS06085 0.46 -0.0
7,548 - HMPREF1058_RS06085 0.46 -2.0
7,579 + HMPREF1058_RS06085 0.47 -2.3
7,584 - HMPREF1058_RS06085 0.47 -3.5
7,595 + HMPREF1058_RS06085 0.48 -0.0
7,597 + HMPREF1058_RS06085 0.48 -1.0
7,598 - HMPREF1058_RS06085 0.48 -3.2
7,797 - HMPREF1058_RS06085 0.57 -4.6
7,935 - HMPREF1058_RS06085 0.63 -2.8
7,955 - HMPREF1058_RS06085 0.64 -1.6
8,013 + HMPREF1058_RS06085 0.67 -1.6
8,014 - HMPREF1058_RS06085 0.67 -5.1
8,113 + HMPREF1058_RS06085 0.71 -3.5
8,114 - HMPREF1058_RS06085 0.71 -1.6
8,114 - HMPREF1058_RS06085 0.71 -2.0
8,148 + HMPREF1058_RS06085 0.73 -1.0
8,148 + HMPREF1058_RS06085 0.73 -1.6
8,168 + HMPREF1058_RS06085 0.74 -2.3
8,169 - HMPREF1058_RS06085 0.74 -4.6
8,169 - HMPREF1058_RS06085 0.74 -2.3
8,169 - HMPREF1058_RS06085 0.74 -4.6
8,208 - HMPREF1058_RS06085 0.76 -4.2
8,250 - HMPREF1058_RS06085 0.77 -3.3
8,250 - HMPREF1058_RS06085 0.77 -2.6
8,272 + HMPREF1058_RS06085 0.78 -2.3
8,273 - HMPREF1058_RS06085 0.79 -1.0
8,273 - HMPREF1058_RS06085 0.79 -2.0
8,333 - HMPREF1058_RS06085 0.81 -4.3
8,337 - HMPREF1058_RS06085 0.81 -1.0
8,381 + HMPREF1058_RS06085 0.83 -1.0
8,415 - HMPREF1058_RS06085 0.85 -1.0
8,422 + HMPREF1058_RS06085 0.85 -2.8
8,422 + HMPREF1058_RS06085 0.85 -2.6
8,423 - HMPREF1058_RS06085 0.85 -6.2
8,423 - HMPREF1058_RS06085 0.85 -5.0
8,427 - -1.0
8,438 + HMPREF1058_RS06085 0.86 -3.5
8,439 - HMPREF1058_RS06085 0.86 -0.0
8,508 + HMPREF1058_RS06085 0.89 -1.6
8,509 - HMPREF1058_RS06085 0.89 -4.0
8,509 - HMPREF1058_RS06085 0.89 -2.0
8,538 + -2.0
8,560 + -0.0
8,562 + -2.0
8,563 - -2.0
8,575 + -3.0
8,575 + -2.3
8,692 - -1.0
8,715 - -0.0
8,733 + -4.3
8,733 + -0.0
8,734 - -3.7
8,736 - -1.6
8,738 - -1.0
8,738 - -1.5
8,738 - -3.3
8,779 + -0.0
8,813 + -0.0
8,817 + -3.7
8,946 - -1.0
8,983 + +1.6
9,070 - -2.0
9,070 - -1.6
9,178 + HMPREF1058_RS06080 0.12 +1.4
9,263 + HMPREF1058_RS06080 0.16 +1.0
9,412 - HMPREF1058_RS06080 0.22 +1.0
9,420 + HMPREF1058_RS06080 0.23 -0.3
9,433 + HMPREF1058_RS06080 0.23 +4.4
9,571 + HMPREF1058_RS06080 0.30 +1.0
9,571 + HMPREF1058_RS06080 0.30 -0.3
9,596 - HMPREF1058_RS06080 0.31 -2.8
9,596 - HMPREF1058_RS06080 0.31 +2.3
9,597 + HMPREF1058_RS06080 0.31 +0.7
9,598 - -0.0
9,680 - HMPREF1058_RS06080 0.35 -0.6

Or see this region's nucleotide sequence