Experiment: diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4
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 HMPREF1058_RS12505 and HMPREF1058_RS12500 are separated by 10 nucleotides HMPREF1058_RS12500 and HMPREF1058_RS12495 are separated by 36 nucleotides HMPREF1058_RS12495 and HMPREF1058_RS12490 are separated by 124 nucleotides HMPREF1058_RS12490 and HMPREF1058_RS12485 are separated by 83 nucleotides
HMPREF1058_RS12505: HMPREF1058_RS12505 - RNA polymerase factor sigma-54, at 92,562 to 94,031
_RS12505
HMPREF1058_RS12500: HMPREF1058_RS12500 - phosphatase PAP2 family protein, at 94,042 to 94,698
_RS12500
HMPREF1058_RS12495: HMPREF1058_RS12495 - glycine cleavage system protein GcvH, at 94,735 to 95,115
_RS12495
HMPREF1058_RS12490: HMPREF1058_RS12490 - 5-(carboxyamino)imidazole ribonucleotide mutase, at 95,240 to 95,749
_RS12490
HMPREF1058_RS12485: HMPREF1058_RS12485 - 4-hydroxy-3-methylbut-2-en-1-yl diphosphate synthase, at 95,833 to 97,677
_RS12485
Position (kb) 94
95
96 Strain fitness (log2 ratio) -5
-4
-3
-2
-1
0
1
2 at 93.775 kb on + strand, within HMPREF1058_RS12505 at 93.792 kb on - strand, within HMPREF1058_RS12505 at 94.029 kb on + strand at 94.034 kb on + strand at 94.040 kb on - strand at 94.040 kb on - strand at 94.077 kb on - strand at 94.113 kb on + strand, within HMPREF1058_RS12500 at 94.114 kb on - strand, within HMPREF1058_RS12500 at 94.140 kb on + strand, within HMPREF1058_RS12500 at 94.140 kb on + strand, within HMPREF1058_RS12500 at 94.184 kb on - strand, within HMPREF1058_RS12500 at 94.191 kb on + strand, within HMPREF1058_RS12500 at 94.217 kb on + strand, within HMPREF1058_RS12500 at 94.218 kb on - strand, within HMPREF1058_RS12500 at 94.229 kb on + strand, within HMPREF1058_RS12500 at 94.230 kb on - strand, within HMPREF1058_RS12500 at 94.271 kb on - strand, within HMPREF1058_RS12500 at 94.339 kb on + strand, within HMPREF1058_RS12500 at 94.350 kb on + strand, within HMPREF1058_RS12500 at 94.386 kb on + strand, within HMPREF1058_RS12500 at 94.387 kb on - strand, within HMPREF1058_RS12500 at 94.408 kb on - strand, within HMPREF1058_RS12500 at 94.537 kb on - strand, within HMPREF1058_RS12500 at 94.617 kb on - strand, within HMPREF1058_RS12500 at 94.627 kb on - strand, within HMPREF1058_RS12500 at 94.627 kb on - strand, within HMPREF1058_RS12500 at 94.631 kb on + strand, within HMPREF1058_RS12500 at 94.632 kb on - strand, within HMPREF1058_RS12500 at 94.634 kb on + strand at 94.754 kb on + strand at 94.787 kb on + strand, within HMPREF1058_RS12495 at 94.799 kb on + strand at 94.799 kb on + strand, within HMPREF1058_RS12495 at 94.799 kb on + strand, within HMPREF1058_RS12495 at 94.799 kb on + strand, within HMPREF1058_RS12495 at 94.804 kb on + strand, within HMPREF1058_RS12495 at 94.856 kb on + strand, within HMPREF1058_RS12495 at 95.037 kb on + strand, within HMPREF1058_RS12495 at 95.102 kb on + strand at 95.118 kb on + strand at 95.118 kb on + strand at 95.118 kb on + strand at 95.118 kb on + strand at 95.214 kb on + strand at 95.328 kb on + strand, within HMPREF1058_RS12490 at 95.571 kb on + strand, within HMPREF1058_RS12490 at 95.571 kb on + strand, within HMPREF1058_RS12490 at 95.747 kb on + strand at 95.771 kb on + strand
Per-strain Table
Position Strand Gene LocusTag Fraction diet=PolysaccharideDeficient; sample=FecalPellet; inoculation=MixComm; mouse7; day4 remove 93,775 + HMPREF1058_RS12505 0.83 +0.6 93,792 - HMPREF1058_RS12505 0.84 -1.4 94,029 + -1.1 94,034 + +1.2 94,040 - +1.6 94,040 - -0.2 94,077 - +0.4 94,113 + HMPREF1058_RS12500 0.11 +0.3 94,114 - HMPREF1058_RS12500 0.11 -0.5 94,140 + HMPREF1058_RS12500 0.15 +0.4 94,140 + HMPREF1058_RS12500 0.15 -2.5 94,184 - HMPREF1058_RS12500 0.22 +0.5 94,191 + HMPREF1058_RS12500 0.23 +0.5 94,217 + HMPREF1058_RS12500 0.27 +2.2 94,218 - HMPREF1058_RS12500 0.27 -0.2 94,229 + HMPREF1058_RS12500 0.28 +0.3 94,230 - HMPREF1058_RS12500 0.29 +0.9 94,271 - HMPREF1058_RS12500 0.35 -0.4 94,339 + HMPREF1058_RS12500 0.45 +2.3 94,350 + HMPREF1058_RS12500 0.47 +0.0 94,386 + HMPREF1058_RS12500 0.52 -0.6 94,387 - HMPREF1058_RS12500 0.53 -0.4 94,408 - HMPREF1058_RS12500 0.56 +1.5 94,537 - HMPREF1058_RS12500 0.75 +1.0 94,617 - HMPREF1058_RS12500 0.88 -0.4 94,627 - HMPREF1058_RS12500 0.89 +0.6 94,627 - HMPREF1058_RS12500 0.89 +0.9 94,631 + HMPREF1058_RS12500 0.90 -0.5 94,632 - HMPREF1058_RS12500 0.90 +0.4 94,634 + -0.4 94,754 + -0.5 94,787 + HMPREF1058_RS12495 0.14 -4.2 94,799 + -1.4 94,799 + HMPREF1058_RS12495 0.17 -2.5 94,799 + HMPREF1058_RS12495 0.17 -3.0 94,799 + HMPREF1058_RS12495 0.17 -4.5 94,804 + HMPREF1058_RS12495 0.18 -1.7 94,856 + HMPREF1058_RS12495 0.32 -1.2 95,037 + HMPREF1058_RS12495 0.79 -2.6 95,102 + +0.0 95,118 + -0.8 95,118 + -1.0 95,118 + +1.8 95,118 + -0.8 95,214 + -1.6 95,328 + HMPREF1058_RS12490 0.17 -4.2 95,571 + HMPREF1058_RS12490 0.65 -5.3 95,571 + HMPREF1058_RS12490 0.65 -4.0 95,747 + +0.2 95,771 + -1.5
Or see this region's nucleotide sequence