Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS10815

Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; 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_RS10820 and HMPREF1058_RS10815 are separated by 164 nucleotidesHMPREF1058_RS10815 and HMPREF1058_RS10810 are separated by 6 nucleotides HMPREF1058_RS10820: HMPREF1058_RS10820 - 4-phosphoerythronate dehydrogenase PdxB, at 554,275 to 555,300 _RS10820 HMPREF1058_RS10815: HMPREF1058_RS10815 - DUF4249 domain-containing protein, at 555,465 to 556,430 _RS10815 HMPREF1058_RS10810: HMPREF1058_RS10810 - TonB-dependent receptor, at 556,437 to 559,091 _RS10810 Position (kb) 555 556 557Strain fitness (log2 ratio) -3 -2 -1 0 1 2at 554.490 kb on + strand, within HMPREF1058_RS10820at 554.490 kb on + strand, within HMPREF1058_RS10820at 554.490 kb on + strand, within HMPREF1058_RS10820at 554.503 kb on + strand, within HMPREF1058_RS10820at 554.570 kb on - strand, within HMPREF1058_RS10820at 554.586 kb on - strand, within HMPREF1058_RS10820at 554.589 kb on - strand, within HMPREF1058_RS10820at 554.782 kb on - strand, within HMPREF1058_RS10820at 554.783 kb on + strand, within HMPREF1058_RS10820at 554.784 kb on - strand, within HMPREF1058_RS10820at 554.784 kb on - strand, within HMPREF1058_RS10820at 554.784 kb on - strand, within HMPREF1058_RS10820at 554.881 kb on - strand, within HMPREF1058_RS10820at 554.906 kb on + strand, within HMPREF1058_RS10820at 554.907 kb on - strand, within HMPREF1058_RS10820at 554.907 kb on - strand, within HMPREF1058_RS10820at 554.910 kb on - strand, within HMPREF1058_RS10820at 554.970 kb on + strand, within HMPREF1058_RS10820at 554.970 kb on + strand, within HMPREF1058_RS10820at 555.036 kb on + strand, within HMPREF1058_RS10820at 555.037 kb on - strand, within HMPREF1058_RS10820at 555.037 kb on - strand, within HMPREF1058_RS10820at 555.038 kb on + strand, within HMPREF1058_RS10820at 555.047 kb on - strand, within HMPREF1058_RS10820at 555.100 kb on - strand, within HMPREF1058_RS10820at 555.112 kb on - strand, within HMPREF1058_RS10820at 555.131 kb on + strand, within HMPREF1058_RS10820at 555.152 kb on - strand, within HMPREF1058_RS10820at 555.153 kb on + strand, within HMPREF1058_RS10820at 555.154 kb on - strand, within HMPREF1058_RS10820at 555.161 kb on - strand, within HMPREF1058_RS10820at 555.196 kb on + strand, within HMPREF1058_RS10820at 555.197 kb on - strand, within HMPREF1058_RS10820at 555.197 kb on - strand, within HMPREF1058_RS10820at 555.316 kb on + strandat 555.492 kb on + strandat 555.494 kb on + strandat 555.494 kb on + strandat 555.495 kb on - strandat 555.527 kb on + strandat 555.562 kb on - strand, within HMPREF1058_RS10815at 555.665 kb on - strand, within HMPREF1058_RS10815at 555.723 kb on + strand, within HMPREF1058_RS10815at 555.724 kb on - strand, within HMPREF1058_RS10815at 555.724 kb on - strand, within HMPREF1058_RS10815at 555.728 kb on + strand, within HMPREF1058_RS10815at 555.731 kb on - strand, within HMPREF1058_RS10815at 555.801 kb on - strand, within HMPREF1058_RS10815at 555.843 kb on + strand, within HMPREF1058_RS10815at 555.844 kb on - strand, within HMPREF1058_RS10815at 555.844 kb on - strand, within HMPREF1058_RS10815at 555.845 kb on + strand, within HMPREF1058_RS10815at 555.852 kb on + strand, within HMPREF1058_RS10815at 555.852 kb on + strand, within HMPREF1058_RS10815at 555.888 kb on + strand, within HMPREF1058_RS10815at 555.911 kb on - strand, within HMPREF1058_RS10815at 555.914 kb on - strand, within HMPREF1058_RS10815at 555.953 kb on - strand, within HMPREF1058_RS10815at 555.953 kb on - strand, within HMPREF1058_RS10815at 555.967 kb on + strand, within HMPREF1058_RS10815at 555.989 kb on - strand, within HMPREF1058_RS10815at 556.008 kb on - strand, within HMPREF1058_RS10815at 556.032 kb on - strand, within HMPREF1058_RS10815at 556.035 kb on + strand, within HMPREF1058_RS10815at 556.036 kb on - strand, within HMPREF1058_RS10815at 556.047 kb on + strand, within HMPREF1058_RS10815at 556.052 kb on + strand, within HMPREF1058_RS10815at 556.052 kb on + strand, within HMPREF1058_RS10815at 556.053 kb on - strand, within HMPREF1058_RS10815at 556.140 kb on + strand, within HMPREF1058_RS10815at 556.141 kb on - strand, within HMPREF1058_RS10815at 556.141 kb on - strand, within HMPREF1058_RS10815at 556.141 kb on - strand, within HMPREF1058_RS10815at 556.141 kb on - strand, within HMPREF1058_RS10815at 556.172 kb on + strand, within HMPREF1058_RS10815at 556.173 kb on - strand, within HMPREF1058_RS10815at 556.219 kb on + strand, within HMPREF1058_RS10815at 556.220 kb on - strand, within HMPREF1058_RS10815at 556.252 kb on + strand, within HMPREF1058_RS10815at 556.320 kb on + strand, within HMPREF1058_RS10815at 556.320 kb on + strand, within HMPREF1058_RS10815at 556.320 kb on + strandat 556.321 kb on - strand, within HMPREF1058_RS10815at 556.321 kb on - strand, within HMPREF1058_RS10815at 556.330 kb on - strand, within HMPREF1058_RS10815at 556.407 kb on + strandat 556.408 kb on - strandat 556.408 kb on - strandat 556.408 kb on - strandat 556.412 kb on + strandat 556.412 kb on + strandat 556.412 kb on + strandat 556.412 kb on + strandat 556.413 kb on + strandat 556.413 kb on - strandat 556.413 kb on - strandat 556.413 kb on - strandat 556.467 kb on + strandat 556.467 kb on + strandat 556.468 kb on - strandat 556.479 kb on + strandat 556.479 kb on + strandat 556.493 kb on - strandat 556.508 kb on + strandat 556.509 kb on - strandat 556.509 kb on - strandat 556.511 kb on - strandat 556.527 kb on + strandat 556.547 kb on - strandat 556.552 kb on + strandat 556.553 kb on - strandat 556.561 kb on + strandat 556.561 kb on + strandat 556.562 kb on - strandat 556.639 kb on + strandat 556.661 kb on + strandat 556.695 kb on + strandat 556.695 kb on + strandat 556.700 kb on - strandat 556.895 kb on + strand, within HMPREF1058_RS10810at 556.929 kb on + strand, within HMPREF1058_RS10810at 556.986 kb on + strand, within HMPREF1058_RS10810at 556.987 kb on - strand, within HMPREF1058_RS10810at 557.094 kb on - strand, within HMPREF1058_RS10810at 557.094 kb on - strand, within HMPREF1058_RS10810at 557.099 kb on - strand, within HMPREF1058_RS10810at 557.152 kb on - strand, within HMPREF1058_RS10810at 557.227 kb on + strand, within HMPREF1058_RS10810at 557.248 kb on - strand, within HMPREF1058_RS10810at 557.251 kb on + strand, within HMPREF1058_RS10810at 557.269 kb on + strand, within HMPREF1058_RS10810at 557.338 kb on + strand, within HMPREF1058_RS10810at 557.339 kb on - strand, within HMPREF1058_RS10810at 557.361 kb on + strand, within HMPREF1058_RS10810at 557.361 kb on + strand, within HMPREF1058_RS10810at 557.362 kb on - strand, within HMPREF1058_RS10810at 557.423 kb on + strand, within HMPREF1058_RS10810at 557.425 kb on + strand, within HMPREF1058_RS10810at 557.425 kb on + strand, within HMPREF1058_RS10810at 557.425 kb on + strand, within HMPREF1058_RS10810at 557.425 kb on + strand, within HMPREF1058_RS10810at 557.426 kb on - strand, within HMPREF1058_RS10810at 557.426 kb on - strand, within HMPREF1058_RS10810at 557.426 kb on - strand, within HMPREF1058_RS10810at 557.427 kb on + strand, within HMPREF1058_RS10810at 557.427 kb on + strand, within HMPREF1058_RS10810

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=Mono; mouse14; day3
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554,490 + HMPREF1058_RS10820 0.21 -0.3
554,490 + HMPREF1058_RS10820 0.21 -0.3
554,490 + HMPREF1058_RS10820 0.21 +0.7
554,503 + HMPREF1058_RS10820 0.22 -0.2
554,570 - HMPREF1058_RS10820 0.29 -1.4
554,586 - HMPREF1058_RS10820 0.30 +0.6
554,589 - HMPREF1058_RS10820 0.31 +0.2
554,782 - HMPREF1058_RS10820 0.49 -0.9
554,783 + HMPREF1058_RS10820 0.50 -1.1
554,784 - HMPREF1058_RS10820 0.50 -0.1
554,784 - HMPREF1058_RS10820 0.50 -0.4
554,784 - HMPREF1058_RS10820 0.50 -0.8
554,881 - HMPREF1058_RS10820 0.59 +0.3
554,906 + HMPREF1058_RS10820 0.62 -0.2
554,907 - HMPREF1058_RS10820 0.62 +1.2
554,907 - HMPREF1058_RS10820 0.62 -0.6
554,910 - HMPREF1058_RS10820 0.62 +0.2
554,970 + HMPREF1058_RS10820 0.68 -0.1
554,970 + HMPREF1058_RS10820 0.68 -0.7
555,036 + HMPREF1058_RS10820 0.74 -0.3
555,037 - HMPREF1058_RS10820 0.74 -0.4
555,037 - HMPREF1058_RS10820 0.74 +0.2
555,038 + HMPREF1058_RS10820 0.74 -0.0
555,047 - HMPREF1058_RS10820 0.75 +0.1
555,100 - HMPREF1058_RS10820 0.80 -0.0
555,112 - HMPREF1058_RS10820 0.82 -1.9
555,131 + HMPREF1058_RS10820 0.83 -0.9
555,152 - HMPREF1058_RS10820 0.85 +0.4
555,153 + HMPREF1058_RS10820 0.86 -0.0
555,154 - HMPREF1058_RS10820 0.86 -0.8
555,161 - HMPREF1058_RS10820 0.86 -3.5
555,196 + HMPREF1058_RS10820 0.90 -1.2
555,197 - HMPREF1058_RS10820 0.90 -0.1
555,197 - HMPREF1058_RS10820 0.90 +0.7
555,316 + -0.3
555,492 + -0.2
555,494 + +0.4
555,494 + -1.6
555,495 - +1.9
555,527 + -0.1
555,562 - HMPREF1058_RS10815 0.10 +0.7
555,665 - HMPREF1058_RS10815 0.21 +1.4
555,723 + HMPREF1058_RS10815 0.27 +0.2
555,724 - HMPREF1058_RS10815 0.27 +1.4
555,724 - HMPREF1058_RS10815 0.27 +2.0
555,728 + HMPREF1058_RS10815 0.27 +0.4
555,731 - HMPREF1058_RS10815 0.28 +1.4
555,801 - HMPREF1058_RS10815 0.35 +0.7
555,843 + HMPREF1058_RS10815 0.39 +0.2
555,844 - HMPREF1058_RS10815 0.39 +1.3
555,844 - HMPREF1058_RS10815 0.39 +0.4
555,845 + HMPREF1058_RS10815 0.39 -0.1
555,852 + HMPREF1058_RS10815 0.40 +0.4
555,852 + HMPREF1058_RS10815 0.40 +1.1
555,888 + HMPREF1058_RS10815 0.44 +1.2
555,911 - HMPREF1058_RS10815 0.46 +1.2
555,914 - HMPREF1058_RS10815 0.46 +2.1
555,953 - HMPREF1058_RS10815 0.51 +0.9
555,953 - HMPREF1058_RS10815 0.51 +0.7
555,967 + HMPREF1058_RS10815 0.52 +0.1
555,989 - HMPREF1058_RS10815 0.54 +1.5
556,008 - HMPREF1058_RS10815 0.56 +2.1
556,032 - HMPREF1058_RS10815 0.59 +0.8
556,035 + HMPREF1058_RS10815 0.59 -1.1
556,036 - HMPREF1058_RS10815 0.59 +0.5
556,047 + HMPREF1058_RS10815 0.60 +0.1
556,052 + HMPREF1058_RS10815 0.61 +0.0
556,052 + HMPREF1058_RS10815 0.61 -1.7
556,053 - HMPREF1058_RS10815 0.61 +0.9
556,140 + HMPREF1058_RS10815 0.70 +0.2
556,141 - HMPREF1058_RS10815 0.70 +0.8
556,141 - HMPREF1058_RS10815 0.70 -1.8
556,141 - HMPREF1058_RS10815 0.70 +1.2
556,141 - HMPREF1058_RS10815 0.70 +1.1
556,172 + HMPREF1058_RS10815 0.73 -0.9
556,173 - HMPREF1058_RS10815 0.73 -0.8
556,219 + HMPREF1058_RS10815 0.78 +0.1
556,220 - HMPREF1058_RS10815 0.78 +1.9
556,252 + HMPREF1058_RS10815 0.81 +0.1
556,320 + HMPREF1058_RS10815 0.89 +0.5
556,320 + HMPREF1058_RS10815 0.89 +0.0
556,320 + +0.3
556,321 - HMPREF1058_RS10815 0.89 +1.1
556,321 - HMPREF1058_RS10815 0.89 -0.4
556,330 - HMPREF1058_RS10815 0.90 +0.9
556,407 + +0.2
556,408 - +0.4
556,408 - +1.0
556,408 - +0.1
556,412 + +0.1
556,412 + -2.1
556,412 + -0.5
556,412 + +0.6
556,413 + +0.2
556,413 - +0.1
556,413 - +0.4
556,413 - +1.0
556,467 + -0.9
556,467 + +0.7
556,468 - +0.9
556,479 + -0.8
556,479 + -0.2
556,493 - +0.4
556,508 + -0.0
556,509 - +2.4
556,509 - +2.2
556,511 - +1.5
556,527 + +0.1
556,547 - +2.6
556,552 + -1.2
556,553 - +1.7
556,561 + -0.4
556,561 + +0.2
556,562 - +1.8
556,639 + -0.2
556,661 + -1.1
556,695 + -1.4
556,695 + -1.0
556,700 - +1.0
556,895 + HMPREF1058_RS10810 0.17 -0.1
556,929 + HMPREF1058_RS10810 0.19 -0.7
556,986 + HMPREF1058_RS10810 0.21 -1.6
556,987 - HMPREF1058_RS10810 0.21 +0.0
557,094 - HMPREF1058_RS10810 0.25 +1.4
557,094 - HMPREF1058_RS10810 0.25 +1.6
557,099 - HMPREF1058_RS10810 0.25 +0.5
557,152 - HMPREF1058_RS10810 0.27 +0.2
557,227 + HMPREF1058_RS10810 0.30 -0.1
557,248 - HMPREF1058_RS10810 0.31 -0.1
557,251 + HMPREF1058_RS10810 0.31 -0.1
557,269 + HMPREF1058_RS10810 0.31 -0.0
557,338 + HMPREF1058_RS10810 0.34 +0.2
557,339 - HMPREF1058_RS10810 0.34 +0.1
557,361 + HMPREF1058_RS10810 0.35 -0.1
557,361 + HMPREF1058_RS10810 0.35 +0.3
557,362 - HMPREF1058_RS10810 0.35 -0.9
557,423 + HMPREF1058_RS10810 0.37 -0.6
557,425 + HMPREF1058_RS10810 0.37 -1.1
557,425 + HMPREF1058_RS10810 0.37 -0.0
557,425 + HMPREF1058_RS10810 0.37 -0.4
557,425 + HMPREF1058_RS10810 0.37 -0.2
557,426 - HMPREF1058_RS10810 0.37 +1.9
557,426 - HMPREF1058_RS10810 0.37 +2.4
557,426 - HMPREF1058_RS10810 0.37 +0.0
557,427 + HMPREF1058_RS10810 0.37 -2.2
557,427 + HMPREF1058_RS10810 0.37 -0.1

Or see this region's nucleotide sequence