Primer 6 Software Package
Primer 6 software package
November – April Season
MDS
Non-metric Multi-Dimensional Scaling
Resemblance worksheet
Name: Resem4
Data type: Similarity
Selection: All
Parameters
Kruskal stress formula: 1
Minimum stress: 0.01
Best 3-d configuration (Stress: 0)
Sample 1 2 3 %
lower_M 1.03 -0.69 0.39 0.0
lower_W 0.69 0.06 -0.63 0.0
middl_M 0.45 0.50 0.05 0.0
middl_W -0.23 0.79 0.29 0.0
upper_M -0.89 -0.41 -0.22 0.0
upper_W -1.06 -0.25 0.12 0.0
Best 2-d configuration (Stress: 0)
Sample 1 2 %
lower_M -1.50 -0.12 0.0
lower_W -0.51 -0.51 0.0
middl_M -0.34 0.36 50.0
middl_W 0.16 0.66 0.0
upper_M 1.04 -0.35 25.0
upper_W 1.15 -0.05 25.0
STRESS VALUES
Repeat 3D 2D
1 0.01 0.01
2 0 0.01
3 0.01 0.01
4 0 0.13
5 0 0.13
6 0.01 0.01
7 0.01 0.01
8 0.01 0.01
9 0.01 0.01
10 0.01 0.13
11 0.01 0.01
12 0.01 0
13 0 0
14 0.01 0.01
15 0.15 0.01
16 0.01 0.01
17 0.01 0.01
18 0.01 0.01
19 0.01 0
20 0.01 0.01
21 0 0.01
22 0.01 0.01
23 0 0.01
24 0.01 0
25 0.01 0.01
** = Maximum number of iterations used
3-d : Minimum stress: 0 occurred 6 times
2-d : Minimum stress: 0 occurred 4 times
Outputs
Plot: Graph7
Plot: Graph8
ANOSIM
Analysis of Similarities
Two-Way Crossed Analysis
Resemblance worksheet
Name: Resem8
Data type: Similarity
Selection: All
Factor Values
Factor: section
lower
middl
upper
Factor: stratum
W
M
Factor Groups
Sample section stratum
11_lower_W lower W
12_lower_W lower W
1_lower_W lower W
2_lower_W lower W
3_lower_W lower W
4_lower_W lower W
11_lower_M lower M
12_lower_M lower M
1_lower_M lower M
2_lower_M lower M
3_lower_M lower M
4_lower_M lower M
11_middl_W middl W
12_middl_W middl W
1_middl_W middl W
2_middl_W middl W
3_middl_W middl W
4_middl_W middl W
11_middl_M middl M
12_middl_M middl M
1_middl_M middl M
2_middl_M middl M
3_middl_M middl M
4_middl_M middl M
11_upper_W upper W
12_upper_W upper W
1_upper_W upper W
2_upper_W upper W
3_upper_W upper W
4_upper_W upper W
11_upper_M upper M
12_upper_M upper M
1_upper_M upper M
2_upper_M upper M
3_upper_M upper M
4_upper_M upper M
TESTS FOR DIFFERENCES BETWEEN section GROUPS
(across all stratum groups)
Global Test
Sample statistic (Global R): 0.438
Significance level of sample statistic: 0.1%
Number of permutations: 999 (Random sample from a large number)
Number of permuted statistics greater than or equal to Global R: 0
Pairwise Tests
R Significance Possible Actual Number >=
Groups Statistic Level % Permutations Permutations Observed
lower, middl 0.411 0.1 213444 999 0
lower, upper 0.557 0.1 213444 999 0
middl, upper 0.369 0.1 213444 999 0
TESTS FOR DIFFERENCES BETWEEN stratum GROUPS
(across all section groups)
Global Test
Sample statistic (Global R): 0.336
Significance level of sample statistic: 0.1%
Number of permutations: 999 (Random sample from 98611128)
Number of permuted statistics greater than or equal to Global R: 0
Outputs
Plot: Graph15
Plot: Graph16
May – October Season
MDS
Non-metric Multi-Dimensional Scaling
Resemblance worksheet
Name: Resem6
Data type: Similarity
Selection: All
Parameters
Kruskal stress formula: 1
Minimum stress: 0.01
Best 3-d configuration (Stress: 0)
Sample 1 2 3 %
lower_M -1.31 0.36 0.24 0.0
lower_W -0.72 0.02 -0.58 0.0
middl_M -0.37 -0.37 0.25 0.0
middl_W 0.35 -0.63 0.07 0.0
upper_M 0.88 0.46 0.18 0.0
upper_W 1.15 0.15 -0.16 0.0
Best 2-d configuration (Stress: 0)
Sample 1 2 %
lower_M 1.15 0.62 0.0
lower_W 0.93 -0.11 0.0
middl_M 0.27 -0.45 50.0
middl_W -0.33 -0.82 0.0
upper_M -0.95 0.49 25.0
upper_W -1.07 0.27 25.0
STRESS VALUES
Repeat 3D 2D
1 0.01 0.01
2 0.01 0.01
3 0.01 0.01
4 0.01 0.01
5 0.01 0.01
6 0.01 0.02
7 0 0.01
8 0.01 0.01
9 0.15 0.27
10 0 0.01
11 0.01 0.01
12 0.01 0.01
13 0.01 0.02
14 0.01 0.13
15 0 0.01
16 0.01 0.01
17 0.01 0
18 0 0
19 0.01 0
20 0.01 0.01
21 0.01 0.13
22 0.01 0.01
23 0 0.01
24 0.01 0.01
25 0.01 0.01
** = Maximum number of iterations used
3-d : Minimum stress: 0 occurred 5 times
2-d : Minimum stress: 0 occurred 3 times
Outputs
Plot: Graph11
Plot: Graph12
ANOSIM
Analysis of Similarities
Two-Way Crossed Analysis
Resemblance worksheet
Name: Resem9
Data type: Similarity
Selection: All
Factor Values
Factor: section
lower
middl
upper
Factor: stratum
M
W
Factor Groups
Sample section stratum
5_lower_M lower M
6_lower_M lower M
7_lower_M lower M
8_lower_M lower M
9_lower_M lower M
10_lower_M lower M
5_lower_W lower W
6_lower_W lower W
7_lower_W lower W
8_lower_W lower W
9_lower_W lower W
10_lower_W lower W
5_middl_M middl M
6_middl_M middl M
7_middl_M middl M
8_middl_M middl M
9_middl_M middl M
10_middl_M middl M
5_middl_W middl W
6_middl_W middl W
7_middl_W middl W
8_middl_W middl W
9_middl_W middl W
10_middl_W middl W
5_upper_M upper M
6_upper_M upper M
7_upper_M upper M
8_upper_M upper M
9_upper_M upper M
10_upper_M upper M
5_upper_W upper W
6_upper_W upper W
7_upper_W upper W
8_upper_W upper W
9_upper_W upper W
10_upper_W upper W
TESTS FOR DIFFERENCES BETWEEN section GROUPS
(across all stratum groups)
Global Test
Sample statistic (Global R): 0.615
Significance level of sample statistic: 0.1%
Number of permutations: 999 (Random sample from a large number)
Number of permuted statistics greater than or equal to Global R: 0
Pairwise Tests
R Significance Possible Actual Number >=
Groups Statistic Level % Permutations Permutations Observed
lower, middl 0.519 0.1 213444 999 0
lower, upper 0.844 0.1 213444 999 0
middl, upper 0.494 0.1 213444 999 0
TESTS FOR DIFFERENCES BETWEEN stratum GROUPS
(across all section groups)
Global Test
Sample statistic (Global R): 0.105
Significance level of sample statistic: 5.4%
Number of permutations: 999 (Random sample from 98611128)
Number of permuted statistics greater than or equal to Global R: 53
Outputs
Plot: Graph17
Plot: Graph18