Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS08460

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; 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_RS08465 and HMPREF1058_RS08460 are separated by 91 nucleotidesHMPREF1058_RS08460 and HMPREF1058_RS08455 are separated by 141 nucleotides HMPREF1058_RS08465: HMPREF1058_RS08465 - BNR-4 repeat-containing protein, at 1,133,354 to 1,134,628 _RS08465 HMPREF1058_RS08460: HMPREF1058_RS08460 - DUF2264 domain-containing protein, at 1,134,720 to 1,137,035 _RS08460 HMPREF1058_RS08455: HMPREF1058_RS08455 - DUF3810 domain-containing protein, at 1,137,177 to 1,138,217 _RS08455 Position (kb) 1134 1135 1136 1137 1138Strain fitness (log2 ratio) -7 -6 -5 -4 -3 -2 -1 0 1 2 3at 1133.738 kb on - strand, within HMPREF1058_RS08465at 1133.852 kb on - strand, within HMPREF1058_RS08465at 1133.913 kb on + strand, within HMPREF1058_RS08465at 1134.028 kb on - strand, within HMPREF1058_RS08465at 1134.065 kb on + strand, within HMPREF1058_RS08465at 1134.067 kb on + strand, within HMPREF1058_RS08465at 1134.087 kb on - strand, within HMPREF1058_RS08465at 1134.087 kb on - strand, within HMPREF1058_RS08465at 1134.166 kb on + strand, within HMPREF1058_RS08465at 1134.194 kb on + strandat 1134.380 kb on + strand, within HMPREF1058_RS08465at 1134.380 kb on + strand, within HMPREF1058_RS08465at 1134.383 kb on + strand, within HMPREF1058_RS08465at 1134.428 kb on + strand, within HMPREF1058_RS08465at 1134.441 kb on + strand, within HMPREF1058_RS08465at 1134.442 kb on - strand, within HMPREF1058_RS08465at 1134.549 kb on - strandat 1134.553 kb on - strandat 1134.611 kb on + strandat 1134.612 kb on - strandat 1134.626 kb on + strandat 1134.626 kb on + strandat 1134.626 kb on + strandat 1134.631 kb on - strandat 1134.631 kb on - strandat 1134.686 kb on + strandat 1134.711 kb on - strandat 1134.759 kb on - strandat 1134.835 kb on + strandat 1134.836 kb on - strandat 1134.921 kb on + strandat 1134.946 kb on - strandat 1134.974 kb on - strand, within HMPREF1058_RS08460at 1135.008 kb on - strand, within HMPREF1058_RS08460at 1135.024 kb on - strand, within HMPREF1058_RS08460at 1135.047 kb on + strand, within HMPREF1058_RS08460at 1135.048 kb on - strandat 1135.048 kb on - strand, within HMPREF1058_RS08460at 1135.086 kb on + strand, within HMPREF1058_RS08460at 1135.088 kb on + strand, within HMPREF1058_RS08460at 1135.088 kb on + strand, within HMPREF1058_RS08460at 1135.089 kb on - strand, within HMPREF1058_RS08460at 1135.098 kb on + strand, within HMPREF1058_RS08460at 1135.099 kb on - strand, within HMPREF1058_RS08460at 1135.120 kb on - strand, within HMPREF1058_RS08460at 1135.121 kb on + strand, within HMPREF1058_RS08460at 1135.121 kb on + strand, within HMPREF1058_RS08460at 1135.122 kb on - strand, within HMPREF1058_RS08460at 1135.203 kb on + strand, within HMPREF1058_RS08460at 1135.203 kb on + strand, within HMPREF1058_RS08460at 1135.211 kb on - strand, within HMPREF1058_RS08460at 1135.233 kb on + strand, within HMPREF1058_RS08460at 1135.234 kb on - strand, within HMPREF1058_RS08460at 1135.236 kb on - strand, within HMPREF1058_RS08460at 1135.278 kb on + strand, within HMPREF1058_RS08460at 1135.278 kb on + strand, within HMPREF1058_RS08460at 1135.286 kb on - strand, within HMPREF1058_RS08460at 1135.344 kb on + strand, within HMPREF1058_RS08460at 1135.344 kb on + strand, within HMPREF1058_RS08460at 1135.344 kb on + strand, within HMPREF1058_RS08460at 1135.486 kb on - strand, within HMPREF1058_RS08460at 1135.601 kb on + strand, within HMPREF1058_RS08460at 1135.636 kb on - strand, within HMPREF1058_RS08460at 1135.654 kb on - strand, within HMPREF1058_RS08460at 1135.811 kb on - strand, within HMPREF1058_RS08460at 1135.827 kb on + strand, within HMPREF1058_RS08460at 1135.869 kb on + strand, within HMPREF1058_RS08460at 1135.889 kb on + strand, within HMPREF1058_RS08460at 1135.928 kb on + strand, within HMPREF1058_RS08460at 1135.980 kb on - strand, within HMPREF1058_RS08460at 1135.995 kb on + strand, within HMPREF1058_RS08460at 1135.995 kb on + strand, within HMPREF1058_RS08460at 1135.995 kb on + strand, within HMPREF1058_RS08460at 1135.995 kb on + strand, within HMPREF1058_RS08460at 1135.995 kb on + strand, within HMPREF1058_RS08460at 1135.996 kb on - strand, within HMPREF1058_RS08460at 1135.998 kb on - strand, within HMPREF1058_RS08460at 1136.246 kb on + strand, within HMPREF1058_RS08460at 1136.330 kb on + strand, within HMPREF1058_RS08460at 1136.415 kb on + strand, within HMPREF1058_RS08460at 1136.463 kb on + strand, within HMPREF1058_RS08460at 1136.466 kb on + strand, within HMPREF1058_RS08460at 1136.468 kb on + strand, within HMPREF1058_RS08460at 1136.475 kb on + strand, within HMPREF1058_RS08460at 1136.475 kb on + strand, within HMPREF1058_RS08460at 1136.493 kb on + strand, within HMPREF1058_RS08460at 1136.628 kb on - strand, within HMPREF1058_RS08460at 1136.772 kb on + strand, within HMPREF1058_RS08460at 1136.773 kb on - strand, within HMPREF1058_RS08460at 1136.874 kb on + strandat 1136.874 kb on + strandat 1136.875 kb on - strandat 1136.876 kb on + strandat 1137.013 kb on + strandat 1137.014 kb on - strandat 1137.086 kb on - strandat 1137.207 kb on + strandat 1137.207 kb on + strandat 1137.209 kb on + strandat 1137.209 kb on + strandat 1137.210 kb on - strandat 1137.210 kb on - strandat 1137.210 kb on - strandat 1137.210 kb on - strandat 1137.214 kb on + strandat 1137.276 kb on + strandat 1137.287 kb on + strand, within HMPREF1058_RS08455at 1137.287 kb on + strand, within HMPREF1058_RS08455at 1137.322 kb on + strand, within HMPREF1058_RS08455at 1137.322 kb on + strand, within HMPREF1058_RS08455at 1137.322 kb on + strand, within HMPREF1058_RS08455at 1137.323 kb on - strand, within HMPREF1058_RS08455at 1137.323 kb on - strand, within HMPREF1058_RS08455at 1137.323 kb on - strand, within HMPREF1058_RS08455at 1137.468 kb on + strand, within HMPREF1058_RS08455at 1137.469 kb on - strand, within HMPREF1058_RS08455at 1137.469 kb on - strand, within HMPREF1058_RS08455at 1137.471 kb on - strand, within HMPREF1058_RS08455at 1137.515 kb on + strand, within HMPREF1058_RS08455at 1137.586 kb on - strand, within HMPREF1058_RS08455at 1137.593 kb on + strand, within HMPREF1058_RS08455at 1137.593 kb on + strand, within HMPREF1058_RS08455at 1137.594 kb on - strand, within HMPREF1058_RS08455at 1137.609 kb on + strand, within HMPREF1058_RS08455at 1137.687 kb on + strand, within HMPREF1058_RS08455at 1137.688 kb on - strand, within HMPREF1058_RS08455at 1137.774 kb on - strand, within HMPREF1058_RS08455at 1137.774 kb on - strand, within HMPREF1058_RS08455at 1137.823 kb on + strand, within HMPREF1058_RS08455at 1137.836 kb on + strand, within HMPREF1058_RS08455at 1137.841 kb on - strand, within HMPREF1058_RS08455at 1137.841 kb on - strand, within HMPREF1058_RS08455at 1137.876 kb on - strand, within HMPREF1058_RS08455at 1137.876 kb on - strand, within HMPREF1058_RS08455at 1137.943 kb on - strand, within HMPREF1058_RS08455at 1137.945 kb on - strand, within HMPREF1058_RS08455at 1137.952 kb on - strand, within HMPREF1058_RS08455

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse12; day4
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1,133,738 - HMPREF1058_RS08465 0.30 -3.1
1,133,852 - HMPREF1058_RS08465 0.39 -3.4
1,133,913 + HMPREF1058_RS08465 0.44 -1.7
1,134,028 - HMPREF1058_RS08465 0.53 -2.3
1,134,065 + HMPREF1058_RS08465 0.56 -2.3
1,134,067 + HMPREF1058_RS08465 0.56 +1.6
1,134,087 - HMPREF1058_RS08465 0.57 -2.3
1,134,087 - HMPREF1058_RS08465 0.57 -2.1
1,134,166 + HMPREF1058_RS08465 0.64 +1.3
1,134,194 + -1.3
1,134,380 + HMPREF1058_RS08465 0.80 +0.1
1,134,380 + HMPREF1058_RS08465 0.80 -0.8
1,134,383 + HMPREF1058_RS08465 0.81 -1.3
1,134,428 + HMPREF1058_RS08465 0.84 -2.1
1,134,441 + HMPREF1058_RS08465 0.85 +3.0
1,134,442 - HMPREF1058_RS08465 0.85 -4.0
1,134,549 - -4.1
1,134,553 - -2.8
1,134,611 + +0.8
1,134,612 - -4.7
1,134,626 + -0.3
1,134,626 + -0.3
1,134,626 + -2.8
1,134,631 - -3.6
1,134,631 - -1.8
1,134,686 + -0.6
1,134,711 - -4.5
1,134,759 - -2.3
1,134,835 + -4.3
1,134,836 - -2.1
1,134,921 + -5.3
1,134,946 - -1.8
1,134,974 - HMPREF1058_RS08460 0.11 -4.3
1,135,008 - HMPREF1058_RS08460 0.12 -5.1
1,135,024 - HMPREF1058_RS08460 0.13 -3.7
1,135,047 + HMPREF1058_RS08460 0.14 -7.1
1,135,048 - -1.3
1,135,048 - HMPREF1058_RS08460 0.14 -5.5
1,135,086 + HMPREF1058_RS08460 0.16 -4.2
1,135,088 + HMPREF1058_RS08460 0.16 -3.1
1,135,088 + HMPREF1058_RS08460 0.16 -2.6
1,135,089 - HMPREF1058_RS08460 0.16 -1.8
1,135,098 + HMPREF1058_RS08460 0.16 -4.5
1,135,099 - HMPREF1058_RS08460 0.16 -2.8
1,135,120 - HMPREF1058_RS08460 0.17 -1.8
1,135,121 + HMPREF1058_RS08460 0.17 -3.3
1,135,121 + HMPREF1058_RS08460 0.17 -3.6
1,135,122 - HMPREF1058_RS08460 0.17 -4.7
1,135,203 + HMPREF1058_RS08460 0.21 -5.2
1,135,203 + HMPREF1058_RS08460 0.21 -1.8
1,135,211 - HMPREF1058_RS08460 0.21 -5.2
1,135,233 + HMPREF1058_RS08460 0.22 -3.1
1,135,234 - HMPREF1058_RS08460 0.22 -4.3
1,135,236 - HMPREF1058_RS08460 0.22 -5.0
1,135,278 + HMPREF1058_RS08460 0.24 -3.7
1,135,278 + HMPREF1058_RS08460 0.24 -2.3
1,135,286 - HMPREF1058_RS08460 0.24 -2.8
1,135,344 + HMPREF1058_RS08460 0.27 -6.7
1,135,344 + HMPREF1058_RS08460 0.27 -3.6
1,135,344 + HMPREF1058_RS08460 0.27 -0.3
1,135,486 - HMPREF1058_RS08460 0.33 -4.8
1,135,601 + HMPREF1058_RS08460 0.38 -6.4
1,135,636 - HMPREF1058_RS08460 0.40 -3.8
1,135,654 - HMPREF1058_RS08460 0.40 -2.3
1,135,811 - HMPREF1058_RS08460 0.47 -2.8
1,135,827 + HMPREF1058_RS08460 0.48 -2.3
1,135,869 + HMPREF1058_RS08460 0.50 -1.8
1,135,889 + HMPREF1058_RS08460 0.50 -3.3
1,135,928 + HMPREF1058_RS08460 0.52 +1.9
1,135,980 - HMPREF1058_RS08460 0.54 +0.2
1,135,995 + HMPREF1058_RS08460 0.55 -4.5
1,135,995 + HMPREF1058_RS08460 0.55 +0.2
1,135,995 + HMPREF1058_RS08460 0.55 -1.5
1,135,995 + HMPREF1058_RS08460 0.55 -0.5
1,135,995 + HMPREF1058_RS08460 0.55 +1.3
1,135,996 - HMPREF1058_RS08460 0.55 +2.4
1,135,998 - HMPREF1058_RS08460 0.55 +0.3
1,136,246 + HMPREF1058_RS08460 0.66 +2.4
1,136,330 + HMPREF1058_RS08460 0.70 -0.5
1,136,415 + HMPREF1058_RS08460 0.73 +1.4
1,136,463 + HMPREF1058_RS08460 0.75 -1.1
1,136,466 + HMPREF1058_RS08460 0.75 +1.9
1,136,468 + HMPREF1058_RS08460 0.75 +2.1
1,136,475 + HMPREF1058_RS08460 0.76 -1.8
1,136,475 + HMPREF1058_RS08460 0.76 -3.7
1,136,493 + HMPREF1058_RS08460 0.77 +0.1
1,136,628 - HMPREF1058_RS08460 0.82 -1.6
1,136,772 + HMPREF1058_RS08460 0.89 -0.6
1,136,773 - HMPREF1058_RS08460 0.89 -0.3
1,136,874 + -1.4
1,136,874 + +0.3
1,136,875 - -3.1
1,136,876 + +2.0
1,137,013 + -2.4
1,137,014 - +1.1
1,137,086 - -0.4
1,137,207 + -0.1
1,137,207 + -0.6
1,137,209 + -2.3
1,137,209 + -0.6
1,137,210 - -1.0
1,137,210 - -2.3
1,137,210 - -2.2
1,137,210 - -1.3
1,137,214 + -1.0
1,137,276 + -1.0
1,137,287 + HMPREF1058_RS08455 0.11 -1.2
1,137,287 + HMPREF1058_RS08455 0.11 -0.3
1,137,322 + HMPREF1058_RS08455 0.14 -3.1
1,137,322 + HMPREF1058_RS08455 0.14 -1.3
1,137,322 + HMPREF1058_RS08455 0.14 -0.1
1,137,323 - HMPREF1058_RS08455 0.14 -0.3
1,137,323 - HMPREF1058_RS08455 0.14 +0.7
1,137,323 - HMPREF1058_RS08455 0.14 +0.3
1,137,468 + HMPREF1058_RS08455 0.28 -0.8
1,137,469 - HMPREF1058_RS08455 0.28 +0.2
1,137,469 - HMPREF1058_RS08455 0.28 -0.6
1,137,471 - HMPREF1058_RS08455 0.28 -0.5
1,137,515 + HMPREF1058_RS08455 0.32 +0.3
1,137,586 - HMPREF1058_RS08455 0.39 -0.4
1,137,593 + HMPREF1058_RS08455 0.40 -0.7
1,137,593 + HMPREF1058_RS08455 0.40 +1.4
1,137,594 - HMPREF1058_RS08455 0.40 +0.2
1,137,609 + HMPREF1058_RS08455 0.41 -1.3
1,137,687 + HMPREF1058_RS08455 0.49 +2.0
1,137,688 - HMPREF1058_RS08455 0.49 -0.8
1,137,774 - HMPREF1058_RS08455 0.57 +0.6
1,137,774 - HMPREF1058_RS08455 0.57 +2.1
1,137,823 + HMPREF1058_RS08455 0.62 -0.8
1,137,836 + HMPREF1058_RS08455 0.63 -0.9
1,137,841 - HMPREF1058_RS08455 0.64 +0.6
1,137,841 - HMPREF1058_RS08455 0.64 -0.3
1,137,876 - HMPREF1058_RS08455 0.67 +0.8
1,137,876 - HMPREF1058_RS08455 0.67 +1.0
1,137,943 - HMPREF1058_RS08455 0.74 +1.8
1,137,945 - HMPREF1058_RS08455 0.74 -1.3
1,137,952 - HMPREF1058_RS08455 0.74 +0.1

Or see this region's nucleotide sequence