Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3
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.
500 nt HMPREF1078_RS05940 and HMPREF1078_RS05945 are separated by 101 nucleotides HMPREF1078_RS05945 and HMPREF1078_RS05950 are separated by 103 nucleotides
HMPREF1078_RS05940: HMPREF1078_RS05940 - 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase, at 521,846 to 523,687
_RS05940
HMPREF1078_RS05945: HMPREF1078_RS05945 - right-handed parallel beta-helix repeat-containing protein, at 523,789 to 525,597
_RS05945
HMPREF1078_RS05950: HMPREF1078_RS05950 - cysteine--tRNA ligase, at 525,701 to 527,179
_RS05950
Position (kb) 523
524
525
526 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3 at 523.690 kb on - strand at 523.714 kb on + strand at 523.735 kb on + strand at 523.743 kb on + strand at 523.743 kb on + strand at 523.748 kb on + strand at 523.749 kb on - strand at 523.783 kb on - strand at 523.927 kb on - strand at 524.034 kb on - strand, within HMPREF1078_RS05945 at 524.070 kb on - strand, within HMPREF1078_RS05945 at 524.070 kb on - strand, within HMPREF1078_RS05945 at 524.070 kb on - strand, within HMPREF1078_RS05945 at 524.072 kb on - strand, within HMPREF1078_RS05945 at 524.073 kb on + strand, within HMPREF1078_RS05945 at 524.074 kb on - strand, within HMPREF1078_RS05945 at 524.143 kb on + strand, within HMPREF1078_RS05945 at 524.143 kb on + strand, within HMPREF1078_RS05945 at 524.144 kb on - strand, within HMPREF1078_RS05945 at 524.194 kb on + strand, within HMPREF1078_RS05945 at 524.283 kb on + strand, within HMPREF1078_RS05945 at 524.286 kb on + strand, within HMPREF1078_RS05945 at 524.346 kb on - strand, within HMPREF1078_RS05945 at 524.349 kb on + strand, within HMPREF1078_RS05945 at 524.408 kb on - strand, within HMPREF1078_RS05945 at 524.468 kb on - strand, within HMPREF1078_RS05945 at 524.550 kb on + strand, within HMPREF1078_RS05945 at 524.550 kb on + strand, within HMPREF1078_RS05945 at 524.550 kb on + strand, within HMPREF1078_RS05945 at 524.551 kb on - strand, within HMPREF1078_RS05945 at 524.551 kb on - strand, within HMPREF1078_RS05945 at 524.552 kb on + strand, within HMPREF1078_RS05945 at 524.552 kb on + strand, within HMPREF1078_RS05945 at 524.601 kb on - strand, within HMPREF1078_RS05945 at 524.635 kb on - strand, within HMPREF1078_RS05945 at 524.642 kb on + strand, within HMPREF1078_RS05945 at 524.767 kb on - strand, within HMPREF1078_RS05945 at 524.819 kb on - strand, within HMPREF1078_RS05945 at 524.820 kb on + strand, within HMPREF1078_RS05945 at 524.821 kb on - strand, within HMPREF1078_RS05945 at 524.850 kb on - strand, within HMPREF1078_RS05945 at 524.857 kb on + strand, within HMPREF1078_RS05945 at 524.858 kb on - strand, within HMPREF1078_RS05945 at 524.982 kb on + strand, within HMPREF1078_RS05945 at 524.983 kb on - strand, within HMPREF1078_RS05945 at 525.000 kb on - strand, within HMPREF1078_RS05945 at 525.000 kb on - strand, within HMPREF1078_RS05945 at 525.016 kb on - strand, within HMPREF1078_RS05945 at 525.016 kb on - strand, within HMPREF1078_RS05945 at 525.098 kb on + strand, within HMPREF1078_RS05945 at 525.099 kb on - strand, within HMPREF1078_RS05945 at 525.122 kb on + strand, within HMPREF1078_RS05945 at 525.174 kb on + strand, within HMPREF1078_RS05945 at 525.174 kb on + strand, within HMPREF1078_RS05945 at 525.175 kb on - strand, within HMPREF1078_RS05945 at 525.199 kb on - strand, within HMPREF1078_RS05945 at 525.213 kb on + strand, within HMPREF1078_RS05945 at 525.399 kb on - strand, within HMPREF1078_RS05945 at 525.399 kb on - strand, within HMPREF1078_RS05945 at 525.399 kb on - strand, within HMPREF1078_RS05945 at 525.530 kb on + strand at 525.531 kb on - strand at 525.543 kb on + strand at 525.565 kb on - strand at 525.569 kb on - strand at 525.602 kb on + strand at 525.603 kb on - strand at 525.621 kb on - strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse10; day3 remove 523,690 - +2.3 523,714 + -1.8 523,735 + -1.3 523,743 + +0.4 523,743 + -1.4 523,748 + -1.3 523,749 - -0.2 523,783 - -0.3 523,927 - -2.3 524,034 - HMPREF1078_RS05945 0.14 +0.4 524,070 - HMPREF1078_RS05945 0.16 -0.2 524,070 - HMPREF1078_RS05945 0.16 +0.4 524,070 - HMPREF1078_RS05945 0.16 -1.2 524,072 - HMPREF1078_RS05945 0.16 -4.0 524,073 + HMPREF1078_RS05945 0.16 +2.9 524,074 - HMPREF1078_RS05945 0.16 -1.9 524,143 + HMPREF1078_RS05945 0.20 -0.8 524,143 + HMPREF1078_RS05945 0.20 +1.3 524,144 - HMPREF1078_RS05945 0.20 -1.0 524,194 + HMPREF1078_RS05945 0.22 -1.0 524,283 + HMPREF1078_RS05945 0.27 +0.6 524,286 + HMPREF1078_RS05945 0.27 +1.1 524,346 - HMPREF1078_RS05945 0.31 -1.5 524,349 + HMPREF1078_RS05945 0.31 -0.9 524,408 - HMPREF1078_RS05945 0.34 -1.9 524,468 - HMPREF1078_RS05945 0.38 -0.8 524,550 + HMPREF1078_RS05945 0.42 +1.4 524,550 + HMPREF1078_RS05945 0.42 -0.2 524,550 + HMPREF1078_RS05945 0.42 +0.2 524,551 - HMPREF1078_RS05945 0.42 -2.3 524,551 - HMPREF1078_RS05945 0.42 +1.9 524,552 + HMPREF1078_RS05945 0.42 +2.1 524,552 + HMPREF1078_RS05945 0.42 -0.3 524,601 - HMPREF1078_RS05945 0.45 +3.3 524,635 - HMPREF1078_RS05945 0.47 +2.2 524,642 + HMPREF1078_RS05945 0.47 +1.0 524,767 - HMPREF1078_RS05945 0.54 -0.2 524,819 - HMPREF1078_RS05945 0.57 -1.3 524,820 + HMPREF1078_RS05945 0.57 -2.4 524,821 - HMPREF1078_RS05945 0.57 +1.4 524,850 - HMPREF1078_RS05945 0.59 +1.9 524,857 + HMPREF1078_RS05945 0.59 -1.0 524,858 - HMPREF1078_RS05945 0.59 +1.1 524,982 + HMPREF1078_RS05945 0.66 +0.0 524,983 - HMPREF1078_RS05945 0.66 +1.8 525,000 - HMPREF1078_RS05945 0.67 +3.7 525,000 - HMPREF1078_RS05945 0.67 +0.7 525,016 - HMPREF1078_RS05945 0.68 +0.4 525,016 - HMPREF1078_RS05945 0.68 -1.1 525,098 + HMPREF1078_RS05945 0.72 +0.9 525,099 - HMPREF1078_RS05945 0.72 -1.4 525,122 + HMPREF1078_RS05945 0.74 +1.1 525,174 + HMPREF1078_RS05945 0.77 +1.4 525,174 + HMPREF1078_RS05945 0.77 -0.8 525,175 - HMPREF1078_RS05945 0.77 +0.8 525,199 - HMPREF1078_RS05945 0.78 -3.2 525,213 + HMPREF1078_RS05945 0.79 +1.2 525,399 - HMPREF1078_RS05945 0.89 -1.7 525,399 - HMPREF1078_RS05945 0.89 -0.3 525,399 - HMPREF1078_RS05945 0.89 +2.1 525,530 + +0.1 525,531 - -0.2 525,543 + +1.8 525,565 - -1.4 525,569 - -0.4 525,602 + -0.4 525,603 - +2.0 525,621 - -0.6
Or see this region's nucleotide sequence