Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS06085

Experiment: Arabinoxylan (Rye Flour) 2.5 mg/ml (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_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) -3 -2 -1 0 1 2 3at 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 Arabinoxylan (Rye Flour) 2.5 mg/ml (C)
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5,559 + HMPREF1058_RS06090 0.35 -0.6
5,559 + HMPREF1058_RS06090 0.35 -1.2
5,560 - HMPREF1058_RS06090 0.36 +0.6
5,623 + HMPREF1058_RS06090 0.40 +0.2
5,623 + HMPREF1058_RS06090 0.40 -1.6
5,624 - HMPREF1058_RS06090 0.40 -0.3
5,624 - HMPREF1058_RS06090 0.40 -0.8
5,626 + HMPREF1058_RS06090 0.40 -0.0
5,627 - HMPREF1058_RS06090 0.40 -2.6
5,630 + HMPREF1058_RS06090 0.40 +0.3
5,661 - HMPREF1058_RS06090 0.43 -0.1
5,812 - HMPREF1058_RS06090 0.53 -1.3
5,845 + HMPREF1058_RS06090 0.55 -1.8
5,845 + HMPREF1058_RS06090 0.55 +0.1
6,115 + HMPREF1058_RS06090 0.74 -0.3
6,129 + HMPREF1058_RS06090 0.75 -2.2
6,145 + HMPREF1058_RS06090 0.76 +0.1
6,145 + HMPREF1058_RS06090 0.76 +0.8
6,146 - HMPREF1058_RS06090 0.76 +0.3
6,146 - HMPREF1058_RS06090 0.76 -1.2
6,146 - HMPREF1058_RS06090 0.76 -1.5
6,146 - HMPREF1058_RS06090 0.76 -1.8
6,148 - HMPREF1058_RS06090 0.77 +0.1
6,169 - HMPREF1058_RS06090 0.78 +0.9
6,174 + HMPREF1058_RS06090 0.78 -0.4
6,220 - HMPREF1058_RS06090 0.82 +0.2
6,270 - HMPREF1058_RS06090 0.85 -1.6
6,334 + HMPREF1058_RS06090 0.90 -0.1
6,335 - HMPREF1058_RS06090 0.90 +0.1
6,335 - HMPREF1058_RS06090 0.90 -1.2
6,335 - HMPREF1058_RS06090 0.90 -0.3
6,336 + HMPREF1058_RS06090 0.90 -1.0
6,337 - HMPREF1058_RS06090 0.90 -2.5
6,340 + +1.7
6,340 + +0.9
6,415 + -2.4
6,463 + +0.5
6,484 - +2.6
6,503 - -0.7
6,503 - -2.4
6,513 - -1.0
6,513 - -1.0
6,554 + -1.6
6,587 + +0.1
6,635 + -0.9
6,636 - -1.7
6,667 + -0.8
6,668 - +0.2
6,675 - -2.8
6,704 - -1.8
6,758 + -3.2
6,772 + HMPREF1058_RS06085 0.10 -0.6
6,773 - HMPREF1058_RS06085 0.10 -0.5
6,810 - HMPREF1058_RS06085 0.12 -0.3
6,911 + HMPREF1058_RS06085 0.17 -0.4
6,912 - HMPREF1058_RS06085 0.17 -3.6
6,990 + HMPREF1058_RS06085 0.20 -0.9
6,990 + HMPREF1058_RS06085 0.20 -0.6
6,991 - HMPREF1058_RS06085 0.20 -1.4
7,023 - HMPREF1058_RS06085 0.22 -0.5
7,086 + HMPREF1058_RS06085 0.25 -1.6
7,086 + HMPREF1058_RS06085 0.25 -0.8
7,086 + HMPREF1058_RS06085 0.25 -1.7
7,087 - HMPREF1058_RS06085 0.25 -0.9
7,117 + HMPREF1058_RS06085 0.26 -1.0
7,120 + HMPREF1058_RS06085 0.26 +0.1
7,120 + HMPREF1058_RS06085 0.26 -0.2
7,120 + HMPREF1058_RS06085 0.26 +0.3
7,120 + HMPREF1058_RS06085 0.26 -2.2
7,121 - HMPREF1058_RS06085 0.26 -0.8
7,142 + HMPREF1058_RS06085 0.27 -1.0
7,143 - HMPREF1058_RS06085 0.27 -0.9
7,146 + HMPREF1058_RS06085 0.27 +0.1
7,147 - HMPREF1058_RS06085 0.27 +0.6
7,164 - HMPREF1058_RS06085 0.28 -1.9
7,283 + HMPREF1058_RS06085 0.34 -1.6
7,284 - HMPREF1058_RS06085 0.34 -1.3
7,299 + HMPREF1058_RS06085 0.34 -0.2
7,306 - HMPREF1058_RS06085 0.35 -2.0
7,343 - HMPREF1058_RS06085 0.36 -2.4
7,373 + HMPREF1058_RS06085 0.38 -0.3
7,373 + HMPREF1058_RS06085 0.38 -0.9
7,416 - HMPREF1058_RS06085 0.40 -2.1
7,416 - HMPREF1058_RS06085 0.40 -2.9
7,416 - HMPREF1058_RS06085 0.40 -1.2
7,417 + HMPREF1058_RS06085 0.40 +0.6
7,418 - HMPREF1058_RS06085 0.40 -0.6
7,418 - HMPREF1058_RS06085 0.40 +0.9
7,418 - HMPREF1058_RS06085 0.40 +1.6
7,418 - HMPREF1058_RS06085 0.40 -0.5
7,418 - HMPREF1058_RS06085 0.40 -2.2
7,420 - HMPREF1058_RS06085 0.40 -0.8
7,420 - HMPREF1058_RS06085 0.40 -1.4
7,511 + HMPREF1058_RS06085 0.44 -1.1
7,531 - HMPREF1058_RS06085 0.45 +0.7
7,547 + HMPREF1058_RS06085 0.46 +0.8
7,548 - HMPREF1058_RS06085 0.46 -1.2
7,579 + HMPREF1058_RS06085 0.47 -1.3
7,584 - HMPREF1058_RS06085 0.47 -3.2
7,595 + HMPREF1058_RS06085 0.48 -1.2
7,597 + HMPREF1058_RS06085 0.48 -2.2
7,598 - HMPREF1058_RS06085 0.48 -2.6
7,797 - HMPREF1058_RS06085 0.57 -0.0
7,935 - HMPREF1058_RS06085 0.63 +0.9
7,955 - HMPREF1058_RS06085 0.64 -0.3
8,013 + HMPREF1058_RS06085 0.67 -1.9
8,014 - HMPREF1058_RS06085 0.67 -0.3
8,113 + HMPREF1058_RS06085 0.71 -1.9
8,114 - HMPREF1058_RS06085 0.71 -0.6
8,114 - HMPREF1058_RS06085 0.71 -1.4
8,148 + HMPREF1058_RS06085 0.73 -0.1
8,148 + HMPREF1058_RS06085 0.73 -0.4
8,168 + HMPREF1058_RS06085 0.74 -0.1
8,169 - HMPREF1058_RS06085 0.74 -0.5
8,169 - HMPREF1058_RS06085 0.74 -1.3
8,169 - HMPREF1058_RS06085 0.74 -3.3
8,208 - HMPREF1058_RS06085 0.76 -3.5
8,250 - HMPREF1058_RS06085 0.77 -0.6
8,250 - HMPREF1058_RS06085 0.77 -1.4
8,272 + HMPREF1058_RS06085 0.78 -1.8
8,273 - HMPREF1058_RS06085 0.79 -0.6
8,273 - HMPREF1058_RS06085 0.79 +1.9
8,333 - HMPREF1058_RS06085 0.81 -1.5
8,337 - HMPREF1058_RS06085 0.81 -0.6
8,381 + HMPREF1058_RS06085 0.83 +1.6
8,415 - HMPREF1058_RS06085 0.85 -0.1
8,422 + HMPREF1058_RS06085 0.85 -2.1
8,422 + HMPREF1058_RS06085 0.85 -0.1
8,423 - HMPREF1058_RS06085 0.85 -3.0
8,423 - HMPREF1058_RS06085 0.85 -0.6
8,427 - -0.7
8,438 + HMPREF1058_RS06085 0.86 -0.9
8,439 - HMPREF1058_RS06085 0.86 -0.9
8,508 + HMPREF1058_RS06085 0.89 +0.1
8,509 - HMPREF1058_RS06085 0.89 -1.1
8,509 - HMPREF1058_RS06085 0.89 +1.9
8,538 + +0.9
8,560 + +0.3
8,562 + -0.9
8,563 - -0.6
8,575 + -0.8
8,575 + +0.8
8,692 - +1.2
8,715 - -0.7
8,733 + -0.7
8,733 + +3.0
8,734 - -2.6
8,736 - -2.1
8,738 - -0.3
8,738 - -3.0
8,738 - -2.4
8,779 + -1.1
8,813 + +1.7
8,817 + -2.4
8,946 - +1.1
8,983 + -0.1
9,070 - +0.7
9,070 - +0.3
9,178 + HMPREF1058_RS06080 0.12 +1.2
9,263 + HMPREF1058_RS06080 0.16 +0.4
9,412 - HMPREF1058_RS06080 0.22 -1.3
9,420 + HMPREF1058_RS06080 0.23 -0.1
9,433 + HMPREF1058_RS06080 0.23 +3.0
9,571 + HMPREF1058_RS06080 0.30 +2.6
9,571 + HMPREF1058_RS06080 0.30 +0.9
9,596 - HMPREF1058_RS06080 0.31 +1.8
9,596 - HMPREF1058_RS06080 0.31 -1.4
9,597 + HMPREF1058_RS06080 0.31 +1.5
9,598 - +1.6
9,680 - HMPREF1058_RS06080 0.35 +1.2

Or see this region's nucleotide sequence