H12 / Guinea Bissau / Chromosome 2 / #1

This page describes a signal of selection found in the Guinea Bissau population using the H12 (Garud et al. 20XX) statistic.The focus of this signal is on chromosome arm 2R between positions 47,760,001 and 47,820,000. The evidence supporting this signal is strong (\Delta_{i} >= 100 on both flanks).

Signal location. Blue markers show the values of the selection statistic. The dashed black line shows the fitted peak model. The shaded red area shows the focus of the selection signal. The shaded blue area shows the genomic region in linkage with the selection event. Use the mouse wheel or the controls at the top right of the plot to zoom in, and hover over genes to see gene names and descriptions.

Genes

The following 6 genes overlap the focal region: AGAP004000 (myosin IX), AGAP004002 (60 kDa heat shock protein, mitochondrial precursor), AGAP013015 (p53 and DNA damage-regulated protein), AGAP004003, AGAP004004, AGAP004005.

The following 8 genes are within 50 kbp of the focal region: AGAP003997 (casein kinase 1, gamma), AGAP003999, AGAP013019, AGAP004006, AGAP004007, AGAP004008, AGAP004011 (survival motor neuron protein), AGAP004012 (katanin p60 ATPase-containing subunit).

Key to insecticide resistance candidate gene types: 1 metabolic; 2 target-site; 3 behavioural; 4 cuticular.

Diagnostics

The information below provides some diagnostics from the Peak modelling algorithm.

Selection signal in context. @@TODO

Peak targetting. @@TODO

Peak fitting diagnostics. @@TODO

Model fit reports

Left flank, peak model:

[[Model]]
    Model(exponential)
[[Fit Statistics]]
    # function evals   = 23
    # data points      = 140
    # variables        = 3
    chi-square         = 0.043
    reduced chi-square = 0.000
    Akaike info crit   = -1125.133
    Bayesian info crit = -1116.309
[[Variables]]
    amplitude:   0.23835243 +/- 0.013331 (5.59%) (init= 0.5)
    decay:       0.19467786 +/- 0.017671 (9.08%) (init= 0.5)
    c:           0.05057227 +/- 0.001621 (3.21%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, decay)          = -0.596
    C(decay, c)                  = -0.274

Right flank, peak model:

[[Model]]
    Model(exponential)
[[Fit Statistics]]
    # function evals   = 31
    # data points      = 144
    # variables        = 3
    chi-square         = 0.078
    reduced chi-square = 0.001
    Akaike info crit   = -1076.158
    Bayesian info crit = -1067.249
[[Variables]]
    amplitude:   0.19138735 +/- 0.016433 (8.59%) (init= 0.5)
    decay:       0.40480750 +/- 0.051707 (12.77%) (init= 0.5)
    c:           0.05836369 +/- 0.002311 (3.96%) (init= 0.03)
    cap:         1 (fixed)
[[Correlations]] (unreported correlations are <  0.100)
    C(amplitude, decay)          = -0.681
    C(decay, c)                  = -0.405

Left flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 139
    # variables        = 1
    chi-square         = 0.155
    reduced chi-square = 0.001
    Akaike info crit   = -942.637
    Bayesian info crit = -939.703
[[Variables]]
    c:   0.05822204 +/- 0.002846 (4.89%) (init= 0.03)

Right flank, null model:

[[Model]]
    Model(constant)
[[Fit Statistics]]
    # function evals   = 6
    # data points      = 143
    # variables        = 1
    chi-square         = 0.182
    reduced chi-square = 0.001
    Akaike info crit   = -951.485
    Bayesian info crit = -948.522
[[Variables]]
    c:   0.06931702 +/- 0.002992 (4.32%) (init= 0.03)

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