Experiment: Ying_Others16 rep C; time point 2
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 GFF1331 and GFF1332 are separated by 41 nucleotides GFF1332 and GFF1333 overlap by 4 nucleotides GFF1333 and GFF1334 are separated by 32 nucleotides GFF1334 and GFF1335 are separated by 95 nucleotides
GFF1331 - 3-dehydroquinate synthase (EC 4.2.3.4), at 183,783 to 184,904
GFF1331
GFF1332 - Shikimate kinase I (EC 2.7.1.71), at 184,946 to 185,509
GFF1332
GFF1333 - Type IV pilus biogenesis protein PilQ, at 185,506 to 187,590
GFF1333
GFF1334 - Type IV pilus biogenesis protein PilP, at 187,623 to 188,078
GFF1334
GFF1335 - Type IV pilus biogenesis protein PilO, at 188,174 to 188,854
GFF1335
Position (kb) 185
186
187
188 Strain fitness (log2 ratio) -6
-5
-4
-3
-2
-1
0
1
2
3 at 184.525 kb on + strand, within GFF1331 at 184.525 kb on + strand, within GFF1331 at 184.525 kb on + strand, within GFF1331 at 184.525 kb on + strand, within GFF1331 at 184.525 kb on + strand, within GFF1331 at 184.525 kb on + strand, within GFF1331 at 184.526 kb on - strand, within GFF1331 at 184.526 kb on - strand, within GFF1331 at 184.526 kb on - strand, within GFF1331 at 184.654 kb on + strand, within GFF1331 at 184.654 kb on + strand, within GFF1331 at 184.655 kb on - strand, within GFF1331 at 184.655 kb on - strand, within GFF1331 at 184.655 kb on - strand, within GFF1331 at 184.696 kb on + strand, within GFF1331 at 184.697 kb on - strand, within GFF1331 at 184.697 kb on - strand, within GFF1331 at 184.697 kb on - strand, within GFF1331 at 184.732 kb on + strand, within GFF1331 at 184.795 kb on + strand at 184.795 kb on + strand at 184.795 kb on + strand at 184.796 kb on - strand at 184.796 kb on - strand at 184.840 kb on + strand at 184.840 kb on + strand at 184.841 kb on - strand at 184.841 kb on - strand at 184.841 kb on - strand at 184.841 kb on - strand at 184.841 kb on - strand at 184.841 kb on - strand at 184.841 kb on - strand at 184.841 kb on - strand at 184.918 kb on - strand at 184.947 kb on + strand at 184.948 kb on - strand at 185.086 kb on - strand, within GFF1332 at 185.181 kb on + strand, within GFF1332 at 185.182 kb on - strand, within GFF1332 at 185.182 kb on - strand, within GFF1332 at 185.208 kb on + strand, within GFF1332 at 185.209 kb on - strand, within GFF1332 at 185.209 kb on - strand, within GFF1332 at 185.209 kb on - strand, within GFF1332 at 185.668 kb on - strand at 185.668 kb on - strand at 185.668 kb on - strand at 185.981 kb on + strand, within GFF1333 at 186.134 kb on + strand, within GFF1333 at 186.134 kb on + strand, within GFF1333 at 186.135 kb on - strand, within GFF1333 at 186.135 kb on - strand, within GFF1333 at 186.135 kb on - strand, within GFF1333 at 186.473 kb on + strand, within GFF1333 at 186.473 kb on + strand, within GFF1333 at 186.474 kb on - strand, within GFF1333 at 186.474 kb on - strand, within GFF1333 at 186.474 kb on - strand, within GFF1333 at 186.474 kb on - strand, within GFF1333 at 186.474 kb on - strand, within GFF1333 at 186.756 kb on - strand, within GFF1333 at 186.873 kb on - strand, within GFF1333 at 187.259 kb on + strand, within GFF1333 at 187.259 kb on + strand, within GFF1333 at 187.260 kb on - strand, within GFF1333 at 187.629 kb on - strand at 187.629 kb on - strand at 187.644 kb on + strand at 187.644 kb on + strand at 187.644 kb on + strand at 187.644 kb on + strand at 187.644 kb on + strand at 187.759 kb on + strand, within GFF1334 at 187.759 kb on + strand, within GFF1334 at 187.760 kb on - strand, within GFF1334 at 187.760 kb on - strand, within GFF1334 at 187.780 kb on + strand, within GFF1334 at 187.780 kb on + strand, within GFF1334 at 187.780 kb on + strand, within GFF1334 at 187.781 kb on - strand, within GFF1334 at 188.002 kb on + strand, within GFF1334 at 188.002 kb on + strand, within GFF1334 at 188.111 kb on + strand at 188.112 kb on - strand at 188.112 kb on - strand at 188.112 kb on - strand at 188.112 kb on - strand at 188.112 kb on - strand at 188.112 kb on - strand at 188.112 kb on - strand at 188.293 kb on + strand, within GFF1335 at 188.294 kb on - strand, within GFF1335 at 188.294 kb on - strand, within GFF1335 at 188.299 kb on + strand, within GFF1335 at 188.299 kb on + strand, within GFF1335 at 188.300 kb on - strand, within GFF1335 at 188.300 kb on - strand, within GFF1335 at 188.300 kb on - strand, within GFF1335 at 188.373 kb on + strand, within GFF1335 at 188.373 kb on + strand, within GFF1335 at 188.374 kb on - strand, within GFF1335 at 188.374 kb on - strand, within GFF1335 at 188.374 kb on - strand, within GFF1335 at 188.374 kb on - strand, within GFF1335 at 188.412 kb on + strand, within GFF1335 at 188.415 kb on + strand, within GFF1335 at 188.416 kb on - strand, within GFF1335 at 188.416 kb on - strand, within GFF1335 at 188.416 kb on - strand, within GFF1335 at 188.550 kb on + strand, within GFF1335 at 188.550 kb on + strand, within GFF1335 at 188.550 kb on + strand, within GFF1335 at 188.551 kb on - strand, within GFF1335 at 188.551 kb on - strand, within GFF1335 at 188.551 kb on - strand, within GFF1335
Per-strain Table
Position Strand Gene LocusTag Fraction Ying_Others16 rep C; time point 2 remove 184,525 + GFF1331 0.66 -2.6 184,525 + GFF1331 0.66 -3.7 184,525 + GFF1331 0.66 -1.9 184,525 + GFF1331 0.66 -2.4 184,525 + GFF1331 0.66 -3.4 184,525 + GFF1331 0.66 -4.2 184,526 - GFF1331 0.66 -2.0 184,526 - GFF1331 0.66 -4.7 184,526 - GFF1331 0.66 -2.5 184,654 + GFF1331 0.78 -3.6 184,654 + GFF1331 0.78 -3.2 184,655 - GFF1331 0.78 -4.9 184,655 - GFF1331 0.78 -6.0 184,655 - GFF1331 0.78 -2.9 184,696 + GFF1331 0.81 -1.5 184,697 - GFF1331 0.81 -1.6 184,697 - GFF1331 0.81 -2.6 184,697 - GFF1331 0.81 -2.1 184,732 + GFF1331 0.85 -0.3 184,795 + -2.2 184,795 + -5.0 184,795 + -3.6 184,796 - -2.8 184,796 - -0.9 184,840 + -1.5 184,840 + -2.4 184,841 - -0.5 184,841 - -2.2 184,841 - -3.5 184,841 - -0.7 184,841 - -2.0 184,841 - -3.9 184,841 - -3.4 184,841 - -3.9 184,918 - -0.2 184,947 + -0.3 184,948 - -0.4 185,086 - GFF1332 0.25 -2.6 185,181 + GFF1332 0.42 -3.6 185,182 - GFF1332 0.42 -3.1 185,182 - GFF1332 0.42 -0.9 185,208 + GFF1332 0.46 -4.2 185,209 - GFF1332 0.47 -3.5 185,209 - GFF1332 0.47 -1.5 185,209 - GFF1332 0.47 -1.3 185,668 - -1.8 185,668 - +0.3 185,668 - +0.8 185,981 + GFF1333 0.23 +0.9 186,134 + GFF1333 0.30 +0.3 186,134 + GFF1333 0.30 +0.6 186,135 - GFF1333 0.30 +1.6 186,135 - GFF1333 0.30 +1.0 186,135 - GFF1333 0.30 +0.4 186,473 + GFF1333 0.46 +0.9 186,473 + GFF1333 0.46 +0.7 186,474 - GFF1333 0.46 +0.0 186,474 - GFF1333 0.46 +0.4 186,474 - GFF1333 0.46 +0.6 186,474 - GFF1333 0.46 +1.3 186,474 - GFF1333 0.46 +0.6 186,756 - GFF1333 0.60 +1.5 186,873 - GFF1333 0.66 +0.9 187,259 + GFF1333 0.84 +0.7 187,259 + GFF1333 0.84 +0.6 187,260 - GFF1333 0.84 +0.5 187,629 - +0.8 187,629 - +0.7 187,644 + +0.4 187,644 + +0.9 187,644 + +0.8 187,644 + +0.7 187,644 + +0.1 187,759 + GFF1334 0.30 +0.2 187,759 + GFF1334 0.30 +0.5 187,760 - GFF1334 0.30 -0.1 187,760 - GFF1334 0.30 -0.4 187,780 + GFF1334 0.34 +0.5 187,780 + GFF1334 0.34 +0.0 187,780 + GFF1334 0.34 +0.4 187,781 - GFF1334 0.35 +0.2 188,002 + GFF1334 0.83 +0.4 188,002 + GFF1334 0.83 +0.7 188,111 + +1.0 188,112 - +0.6 188,112 - +0.6 188,112 - +0.8 188,112 - +0.8 188,112 - +1.0 188,112 - +1.4 188,112 - +1.0 188,293 + GFF1335 0.17 +0.7 188,294 - GFF1335 0.18 +0.8 188,294 - GFF1335 0.18 +0.9 188,299 + GFF1335 0.18 +0.4 188,299 + GFF1335 0.18 +1.9 188,300 - GFF1335 0.19 +0.7 188,300 - GFF1335 0.19 +0.6 188,300 - GFF1335 0.19 +0.5 188,373 + GFF1335 0.29 +1.2 188,373 + GFF1335 0.29 +0.2 188,374 - GFF1335 0.29 -0.5 188,374 - GFF1335 0.29 +0.8 188,374 - GFF1335 0.29 +0.7 188,374 - GFF1335 0.29 +1.0 188,412 + GFF1335 0.35 +1.0 188,415 + GFF1335 0.35 +0.8 188,416 - GFF1335 0.36 +0.7 188,416 - GFF1335 0.36 +1.7 188,416 - GFF1335 0.36 +1.0 188,550 + GFF1335 0.55 +1.1 188,550 + GFF1335 0.55 +0.6 188,550 + GFF1335 0.55 +3.0 188,551 - GFF1335 0.55 +1.0 188,551 - GFF1335 0.55 +0.5 188,551 - GFF1335 0.55 +0.3
Or see this region's nucleotide sequence