Experiment: diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse4; day2
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_RS06380 and HMPREF1058_RS06375 are separated by 300 nucleotides HMPREF1058_RS06375 and HMPREF1058_RS06370 are separated by 65 nucleotides
HMPREF1058_RS06380: HMPREF1058_RS06380 - copper homeostasis protein CutC, at 493,830 to 494,693
_RS06380
HMPREF1058_RS06375: HMPREF1058_RS06375 - glutaminase A, at 494,994 to 495,956
_RS06375
HMPREF1058_RS06370: HMPREF1058_RS06370 - glutamate decarboxylase, at 496,022 to 497,470
_RS06370
Position (kb) 494
495
496 Strain fitness (log2 ratio) -4
-3
-2
-1
0
1
2
3
4
5
6 at 494.017 kb on - strand, within HMPREF1058_RS06380 at 494.034 kb on + strand, within HMPREF1058_RS06380 at 494.075 kb on + strand, within HMPREF1058_RS06380 at 494.129 kb on + strand, within HMPREF1058_RS06380 at 494.133 kb on - strand, within HMPREF1058_RS06380 at 494.243 kb on + strand, within HMPREF1058_RS06380 at 494.256 kb on + strand, within HMPREF1058_RS06380 at 494.384 kb on - strand, within HMPREF1058_RS06380 at 494.538 kb on + strand, within HMPREF1058_RS06380 at 494.604 kb on + strand, within HMPREF1058_RS06380 at 494.618 kb on - strand at 494.694 kb on - strand at 494.706 kb on + strand at 494.858 kb on - strand at 494.888 kb on + strand at 495.024 kb on + strand at 495.048 kb on - strand at 495.050 kb on + strand at 495.050 kb on + strand at 495.401 kb on - strand, within HMPREF1058_RS06375 at 495.405 kb on - strand, within HMPREF1058_RS06375 at 495.507 kb on + strand, within HMPREF1058_RS06375 at 495.842 kb on + strand, within HMPREF1058_RS06375 at 495.843 kb on - strand, within HMPREF1058_RS06375 at 495.843 kb on - strand, within HMPREF1058_RS06375 at 495.862 kb on + strand at 495.863 kb on - strand at 495.875 kb on + strand at 495.895 kb on + strand at 495.904 kb on + strand at 495.942 kb on + strand at 495.943 kb on - strand at 495.943 kb on - strand at 495.944 kb on + strand at 496.017 kb on + strand at 496.017 kb on + strand at 496.073 kb on + strand at 496.169 kb on - strand, within HMPREF1058_RS06370 at 496.202 kb on + strand, within HMPREF1058_RS06370 at 496.202 kb on + strand, within HMPREF1058_RS06370 at 496.248 kb on + strand, within HMPREF1058_RS06370 at 496.282 kb on + strand, within HMPREF1058_RS06370 at 496.359 kb on - strand, within HMPREF1058_RS06370 at 496.362 kb on - strand, within HMPREF1058_RS06370 at 496.417 kb on - strand, within HMPREF1058_RS06370 at 496.488 kb on + strand, within HMPREF1058_RS06370 at 496.489 kb on - strand, within HMPREF1058_RS06370 at 496.611 kb on - strand, within HMPREF1058_RS06370 at 496.782 kb on + strand, within HMPREF1058_RS06370 at 496.812 kb on - strand, within HMPREF1058_RS06370 at 496.932 kb on - strand, within HMPREF1058_RS06370
Per-strain Table
Position Strand Gene LocusTag Fraction diet=StandardDiet; sample=FecalPellet; inoculation=MixComm; mouse4; day2 remove 494,017 - HMPREF1058_RS06380 0.22 -2.6 494,034 + HMPREF1058_RS06380 0.24 +0.4 494,075 + HMPREF1058_RS06380 0.28 -1.1 494,129 + HMPREF1058_RS06380 0.35 -0.6 494,133 - HMPREF1058_RS06380 0.35 -4.0 494,243 + HMPREF1058_RS06380 0.48 -2.1 494,256 + HMPREF1058_RS06380 0.49 -0.8 494,384 - HMPREF1058_RS06380 0.64 -1.6 494,538 + HMPREF1058_RS06380 0.82 -1.1 494,604 + HMPREF1058_RS06380 0.90 -3.8 494,618 - +0.4 494,694 - -0.0 494,706 + -2.4 494,858 - -0.6 494,888 + -1.5 495,024 + +2.5 495,048 - +0.8 495,050 + -1.4 495,050 + -1.1 495,401 - HMPREF1058_RS06375 0.42 +0.4 495,405 - HMPREF1058_RS06375 0.43 +0.8 495,507 + HMPREF1058_RS06375 0.53 +0.8 495,842 + HMPREF1058_RS06375 0.88 -1.9 495,843 - HMPREF1058_RS06375 0.88 +6.3 495,843 - HMPREF1058_RS06375 0.88 -2.9 495,862 + +0.4 495,863 - -0.2 495,875 + -0.1 495,895 + -1.6 495,904 + +1.6 495,942 + -2.1 495,943 - +0.5 495,943 - +2.8 495,944 + +1.4 496,017 + -1.1 496,017 + +3.2 496,073 + +0.9 496,169 - HMPREF1058_RS06370 0.10 +0.2 496,202 + HMPREF1058_RS06370 0.12 +1.7 496,202 + HMPREF1058_RS06370 0.12 -0.7 496,248 + HMPREF1058_RS06370 0.16 -0.0 496,282 + HMPREF1058_RS06370 0.18 -1.1 496,359 - HMPREF1058_RS06370 0.23 -1.1 496,362 - HMPREF1058_RS06370 0.23 -0.6 496,417 - HMPREF1058_RS06370 0.27 -1.6 496,488 + HMPREF1058_RS06370 0.32 +5.1 496,489 - HMPREF1058_RS06370 0.32 -0.6 496,611 - HMPREF1058_RS06370 0.41 +0.2 496,782 + HMPREF1058_RS06370 0.52 +1.3 496,812 - HMPREF1058_RS06370 0.55 -1.1 496,932 - HMPREF1058_RS06370 0.63 -0.1
Or see this region's nucleotide sequence