Strain Fitness in Phocaeicola vulgatus CL09T03C04 around HMPREF1058_RS01140

Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; 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_RS01145 and HMPREF1058_RS01140 overlap by 4 nucleotidesHMPREF1058_RS01140 and HMPREF1058_RS01135 are separated by 158 nucleotidesHMPREF1058_RS01135 and HMPREF1058_RS01130 are separated by 155 nucleotides HMPREF1058_RS01145: HMPREF1058_RS01145 - sigma-54-dependent Fis family transcriptional regulator, at 199,877 to 201,244 _RS01145 HMPREF1058_RS01140: HMPREF1058_RS01140 - ATP-binding protein, at 201,241 to 202,572 _RS01140 HMPREF1058_RS01135: HMPREF1058_RS01135 - tRNA-Pro, at 202,731 to 202,805 _RS01135 HMPREF1058_RS01130: HMPREF1058_RS01130 - phage integrase SAM-like domain-containing protein, at 202,961 to 204,205 _RS01130 Position (kb) 201 202 203Strain fitness (log2 ratio) -4 -3 -2 -1 0 1 2 3 4at 200.405 kb on - strand, within HMPREF1058_RS01145at 200.495 kb on - strand, within HMPREF1058_RS01145at 200.517 kb on + strand, within HMPREF1058_RS01145at 200.517 kb on + strand, within HMPREF1058_RS01145at 200.569 kb on + strand, within HMPREF1058_RS01145at 200.569 kb on + strand, within HMPREF1058_RS01145at 200.570 kb on - strand, within HMPREF1058_RS01145at 200.660 kb on - strand, within HMPREF1058_RS01145at 200.660 kb on - strand, within HMPREF1058_RS01145at 200.660 kb on - strand, within HMPREF1058_RS01145at 200.723 kb on - strand, within HMPREF1058_RS01145at 200.724 kb on + strand, within HMPREF1058_RS01145at 200.764 kb on - strand, within HMPREF1058_RS01145at 200.813 kb on + strand, within HMPREF1058_RS01145at 200.818 kb on + strand, within HMPREF1058_RS01145at 200.820 kb on - strand, within HMPREF1058_RS01145at 200.911 kb on + strand, within HMPREF1058_RS01145at 200.911 kb on + strand, within HMPREF1058_RS01145at 201.123 kb on + strandat 201.241 kb on - strandat 201.276 kb on + strandat 201.281 kb on + strandat 201.282 kb on - strandat 201.301 kb on - strandat 201.373 kb on - strandat 201.382 kb on + strand, within HMPREF1058_RS01140at 201.383 kb on - strand, within HMPREF1058_RS01140at 201.385 kb on - strand, within HMPREF1058_RS01140at 201.439 kb on - strand, within HMPREF1058_RS01140at 201.540 kb on + strand, within HMPREF1058_RS01140at 201.637 kb on - strand, within HMPREF1058_RS01140at 201.638 kb on + strand, within HMPREF1058_RS01140at 201.638 kb on + strand, within HMPREF1058_RS01140at 201.639 kb on - strand, within HMPREF1058_RS01140at 201.732 kb on + strand, within HMPREF1058_RS01140at 201.732 kb on + strand, within HMPREF1058_RS01140at 201.781 kb on - strand, within HMPREF1058_RS01140at 201.781 kb on - strand, within HMPREF1058_RS01140at 201.781 kb on - strand, within HMPREF1058_RS01140at 201.789 kb on + strand, within HMPREF1058_RS01140at 201.789 kb on + strand, within HMPREF1058_RS01140at 201.789 kb on + strand, within HMPREF1058_RS01140at 201.790 kb on - strand, within HMPREF1058_RS01140at 201.790 kb on - strand, within HMPREF1058_RS01140at 201.792 kb on + strand, within HMPREF1058_RS01140at 201.823 kb on + strand, within HMPREF1058_RS01140at 201.870 kb on + strand, within HMPREF1058_RS01140at 201.870 kb on + strand, within HMPREF1058_RS01140at 201.942 kb on - strand, within HMPREF1058_RS01140at 201.964 kb on - strand, within HMPREF1058_RS01140at 202.053 kb on + strand, within HMPREF1058_RS01140at 202.060 kb on - strand, within HMPREF1058_RS01140at 202.144 kb on - strand, within HMPREF1058_RS01140at 202.146 kb on - strand, within HMPREF1058_RS01140at 202.200 kb on + strand, within HMPREF1058_RS01140at 202.200 kb on + strand, within HMPREF1058_RS01140at 202.201 kb on - strand, within HMPREF1058_RS01140at 202.203 kb on - strand, within HMPREF1058_RS01140at 202.204 kb on + strand, within HMPREF1058_RS01140at 202.205 kb on - strand, within HMPREF1058_RS01140at 202.205 kb on - strand, within HMPREF1058_RS01140at 202.206 kb on + strand, within HMPREF1058_RS01140at 202.207 kb on - strand, within HMPREF1058_RS01140at 202.207 kb on - strand, within HMPREF1058_RS01140at 202.253 kb on + strand, within HMPREF1058_RS01140at 202.254 kb on - strand, within HMPREF1058_RS01140at 202.262 kb on + strand, within HMPREF1058_RS01140at 202.330 kb on - strand, within HMPREF1058_RS01140at 202.460 kb on + strandat 202.461 kb on - strandat 202.461 kb on - strandat 202.604 kb on - strandat 202.662 kb on + strandat 203.058 kb on - strandat 203.062 kb on + strandat 203.083 kb on + strandat 203.084 kb on - strandat 203.139 kb on + strand, within HMPREF1058_RS01130at 203.139 kb on + strand, within HMPREF1058_RS01130at 203.193 kb on + strand, within HMPREF1058_RS01130at 203.197 kb on + strand, within HMPREF1058_RS01130at 203.210 kb on + strandat 203.210 kb on + strand, within HMPREF1058_RS01130at 203.210 kb on + strand, within HMPREF1058_RS01130at 203.210 kb on + strand, within HMPREF1058_RS01130at 203.211 kb on - strand, within HMPREF1058_RS01130at 203.218 kb on + strand, within HMPREF1058_RS01130at 203.251 kb on + strand, within HMPREF1058_RS01130at 203.294 kb on + strandat 203.294 kb on + strand, within HMPREF1058_RS01130at 203.294 kb on + strand, within HMPREF1058_RS01130at 203.295 kb on - strand, within HMPREF1058_RS01130at 203.295 kb on - strand, within HMPREF1058_RS01130at 203.295 kb on - strand, within HMPREF1058_RS01130at 203.338 kb on + strand, within HMPREF1058_RS01130at 203.339 kb on - strand, within HMPREF1058_RS01130at 203.416 kb on + strand, within HMPREF1058_RS01130at 203.418 kb on + strand, within HMPREF1058_RS01130at 203.427 kb on - strand, within HMPREF1058_RS01130at 203.436 kb on - strand, within HMPREF1058_RS01130at 203.534 kb on + strandat 203.537 kb on - strand, within HMPREF1058_RS01130at 203.537 kb on - strand, within HMPREF1058_RS01130at 203.537 kb on - strand, within HMPREF1058_RS01130at 203.541 kb on + strandat 203.558 kb on + strand, within HMPREF1058_RS01130at 203.559 kb on - strand, within HMPREF1058_RS01130

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Per-strain Table

Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day4
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200,405 - HMPREF1058_RS01145 0.39 -4.0
200,495 - HMPREF1058_RS01145 0.45 -0.8
200,517 + HMPREF1058_RS01145 0.47 -2.7
200,517 + HMPREF1058_RS01145 0.47 -2.3
200,569 + HMPREF1058_RS01145 0.51 +0.2
200,569 + HMPREF1058_RS01145 0.51 -0.2
200,570 - HMPREF1058_RS01145 0.51 -2.2
200,660 - HMPREF1058_RS01145 0.57 -2.2
200,660 - HMPREF1058_RS01145 0.57 -2.5
200,660 - HMPREF1058_RS01145 0.57 -2.3
200,723 - HMPREF1058_RS01145 0.62 -1.2
200,724 + HMPREF1058_RS01145 0.62 -2.3
200,764 - HMPREF1058_RS01145 0.65 -1.4
200,813 + HMPREF1058_RS01145 0.68 -0.8
200,818 + HMPREF1058_RS01145 0.69 -4.7
200,820 - HMPREF1058_RS01145 0.69 +0.2
200,911 + HMPREF1058_RS01145 0.76 +1.7
200,911 + HMPREF1058_RS01145 0.76 -1.6
201,123 + -2.2
201,241 - -3.0
201,276 + +1.5
201,281 + -3.2
201,282 - +0.2
201,301 - -0.1
201,373 - +0.2
201,382 + HMPREF1058_RS01140 0.11 -2.8
201,383 - HMPREF1058_RS01140 0.11 -0.8
201,385 - HMPREF1058_RS01140 0.11 -1.8
201,439 - HMPREF1058_RS01140 0.15 +0.2
201,540 + HMPREF1058_RS01140 0.22 -1.4
201,637 - HMPREF1058_RS01140 0.30 -0.8
201,638 + HMPREF1058_RS01140 0.30 +0.2
201,638 + HMPREF1058_RS01140 0.30 +0.3
201,639 - HMPREF1058_RS01140 0.30 -0.8
201,732 + HMPREF1058_RS01140 0.37 -1.8
201,732 + HMPREF1058_RS01140 0.37 -2.4
201,781 - HMPREF1058_RS01140 0.41 -3.2
201,781 - HMPREF1058_RS01140 0.41 -1.4
201,781 - HMPREF1058_RS01140 0.41 -0.4
201,789 + HMPREF1058_RS01140 0.41 -0.8
201,789 + HMPREF1058_RS01140 0.41 +0.9
201,789 + HMPREF1058_RS01140 0.41 +0.2
201,790 - HMPREF1058_RS01140 0.41 -0.3
201,790 - HMPREF1058_RS01140 0.41 -1.8
201,792 + HMPREF1058_RS01140 0.41 -1.7
201,823 + HMPREF1058_RS01140 0.44 -1.4
201,870 + HMPREF1058_RS01140 0.47 -0.2
201,870 + HMPREF1058_RS01140 0.47 -1.9
201,942 - HMPREF1058_RS01140 0.53 +0.9
201,964 - HMPREF1058_RS01140 0.54 -0.8
202,053 + HMPREF1058_RS01140 0.61 -2.4
202,060 - HMPREF1058_RS01140 0.61 -1.3
202,144 - HMPREF1058_RS01140 0.68 -2.0
202,146 - HMPREF1058_RS01140 0.68 -3.3
202,200 + HMPREF1058_RS01140 0.72 -1.1
202,200 + HMPREF1058_RS01140 0.72 -3.8
202,201 - HMPREF1058_RS01140 0.72 -0.8
202,203 - HMPREF1058_RS01140 0.72 -2.7
202,204 + HMPREF1058_RS01140 0.72 -2.4
202,205 - HMPREF1058_RS01140 0.72 -3.3
202,205 - HMPREF1058_RS01140 0.72 +0.2
202,206 + HMPREF1058_RS01140 0.72 -1.4
202,207 - HMPREF1058_RS01140 0.73 -0.8
202,207 - HMPREF1058_RS01140 0.73 +0.5
202,253 + HMPREF1058_RS01140 0.76 -1.0
202,254 - HMPREF1058_RS01140 0.76 -2.0
202,262 + HMPREF1058_RS01140 0.77 +2.3
202,330 - HMPREF1058_RS01140 0.82 -2.5
202,460 + -1.4
202,461 - -1.4
202,461 - -0.8
202,604 - +1.3
202,662 + -3.0
203,058 - -1.2
203,062 + -0.0
203,083 + +0.6
203,084 - +4.4
203,139 + HMPREF1058_RS01130 0.14 -2.8
203,139 + HMPREF1058_RS01130 0.14 -0.8
203,193 + HMPREF1058_RS01130 0.19 +2.5
203,197 + HMPREF1058_RS01130 0.19 -2.7
203,210 + +0.2
203,210 + HMPREF1058_RS01130 0.20 +1.3
203,210 + HMPREF1058_RS01130 0.20 +1.9
203,210 + HMPREF1058_RS01130 0.20 -0.4
203,211 - HMPREF1058_RS01130 0.20 -2.4
203,218 + HMPREF1058_RS01130 0.21 +1.3
203,251 + HMPREF1058_RS01130 0.23 +0.2
203,294 + -0.8
203,294 + HMPREF1058_RS01130 0.27 +0.2
203,294 + HMPREF1058_RS01130 0.27 +1.6
203,295 - HMPREF1058_RS01130 0.27 -2.2
203,295 - HMPREF1058_RS01130 0.27 -0.6
203,295 - HMPREF1058_RS01130 0.27 -1.4
203,338 + HMPREF1058_RS01130 0.30 +3.1
203,339 - HMPREF1058_RS01130 0.30 -0.1
203,416 + HMPREF1058_RS01130 0.37 -0.4
203,418 + HMPREF1058_RS01130 0.37 -1.0
203,427 - HMPREF1058_RS01130 0.37 -0.2
203,436 - HMPREF1058_RS01130 0.38 +1.2
203,534 + -1.4
203,537 - HMPREF1058_RS01130 0.46 -1.4
203,537 - HMPREF1058_RS01130 0.46 -2.2
203,537 - HMPREF1058_RS01130 0.46 -0.4
203,541 + +0.2
203,558 + HMPREF1058_RS01130 0.48 -1.8
203,559 - HMPREF1058_RS01130 0.48 +2.0

Or see this region's nucleotide sequence