## The number of loci caught by each filter.
## ipyrad API location: [assembly].stats_dfs.s7_filters

                           total_filters applied_order retained_loci
total_prefiltered_loci                 0             0           160
filtered_by_rm_duplicates              3             3           157
filtered_by_max_indels                 5             5           152
filtered_by_max_SNPs                   0             0           152
filtered_by_max_shared_het             8             8           144
filtered_by_min_sample                89            89            55
total_filtered_loci                  105           105            55


## The number of loci recovered for each Sample.
## ipyrad API location: [assembly].stats_dfs.s7_samples

         sample_coverage
KLU334                16
KLU95                 18
KLU96                 15
KLU98                 19
ODE1                  14
ODE14                  7
ODE30                 25
ODE36                 21
ODE40                 18
ODE56                 23
SADAu12               11
SADAu7                11
SCA1                  12
SCA101                10
SCA2                   6
SCA85                  1
SCA87                  1
SCA94                 21
TAS20                 21
TAS21                 18
VEN16                 16
VEN5                   2
VEN89                 13
VEN96                 14


## The number of loci for which N taxa have data.
## ipyrad API location: [assembly].stats_dfs.s7_loci

    locus_coverage  sum_coverage
1                0             0
2                0             0
3                0             0
4               24            24
5                5            29
6                5            34
7                7            41
8                6            47
9                3            50
10               4            54
11               0            54
12               0            54
13               0            54
14               0            54
15               0            54
16               0            54
17               0            54
18               1            55
19               0            55
20               0            55
21               0            55
22               0            55
23               0            55
24               0            55


The distribution of SNPs (var and pis) per locus.
## var = Number of loci with n variable sites (pis + autapomorphies)
## pis = Number of loci with n parsimony informative site (minor allele in >1 sample)
## ipyrad API location: [assembly].stats_dfs.s7_snps
## The "reference" sample is included if present unless 'exclude_reference=True'

    var  sum_var  pis  sum_pis
0     8        0   21        0
1    13       13    9        9
2     3       19    8       25
3     6       37    1       28
4     1       41    4       44
5     0       41    5       69
6     3       59    0       69
7     6      101    2       83
8     3      125    0       83
9     3      152    1       92
10    0      152    1      102
11    0      152    0      102
12    0      152    1      114
13    2      178    0      114
14    1      192    1      128
15    0      192    0      128
16    0      192    0      128
17    2      226    0      128
18    0      226    1      146
19    0      226    0      146
20    0      226    0      146
21    0      226    0      146
22    0      226    0      146
23    1      249    0      146
24    0      249    0      146
25    1      274    0      146
26    0      274    0      146
27    0      274    0      146
28    0      274    0      146
29    0      274    0      146
30    0      274    0      146
31    1      305    0      146
32    0      305    0      146
33    0      305    0      146
34    0      305    0      146
35    0      305    0      146
36    0      305    0      146
37    0      305    0      146
38    1      343    0      146


## Final Sample stats summary
         state  reads_raw  reads_passed_filter  clusters_total  clusters_hidepth  hetero_est  error_est  reads_consens  loci_in_assembly
KLU334       7       8952                 8872            4977                56    0.018069   0.006335             40                16
KLU95        7      12242                12102            5866                86    0.020807   0.005376             51                18
KLU96        7      12780                12639            6227                77    0.019695   0.006631             48                15
KLU98        7      12983                12848            7227                73    0.021419   0.006686             48                19
ODE1         7       9156                 9058            4975                63    0.025020   0.007096             39                14
ODE14        7       5713                 5647            2977                33    0.021280   0.006537             22                 7
ODE30        7      14948                14784            7173                96    0.019896   0.006287             67                25
ODE36        7      16186                16011            7102                99    0.027102   0.005367             54                21
ODE40        7      16858                16671            7665                91    0.021136   0.006978             59                18
ODE56        7      17642                17440            8042               119    0.023680   0.005730             82                23
SADAu12      7       5415                 5359            2648                31    0.022108   0.001610             23                11
SADAu7       7       4386                 4326            2425                39    0.019500   0.008840             25                11
SCA1         7       9930                 9862            4974                50    0.016940   0.009604             34                12
SCA101       7       6264                 6183            3227                28    0.019527   0.007534             18                10
SCA2         7       8873                 8805            4659                36    0.022877   0.005725             18                 6
SCA85        7         65                   63              40                 2    0.042566   0.014730              2                 1
SCA87        7         58                   58              25                 2    0.038093   0.016114              1                 1
SCA94        7      10345                10219            5155                73    0.023654   0.004657             49                21
TAS20        7      19786                19613            9181               130    0.022997   0.005326             88                21
TAS21        7      12203                12056            6445                72    0.020247   0.006425             51                18
VEN16        7      14452                14312            6721                91    0.021742   0.007726             57                16
VEN5         7       1561                 1543            1012                 9    0.014446   0.006239              5                 2
VEN89        7       6706                 6623            3498                32    0.020292   0.010726             23                13
VEN96        7      11042                10940            5528                63    0.025229   0.009050             40                14


## Alignment matrix statistics:
snps matrix size: (24, 343), 79.45% missing sites.
sequence matrix size: (24, 11260), 76.67% missing sites.