SCOPt3 simulation: control-file audit

actual control file has different insertion + deletion rates... compare against the symmetric-settings description. Need to pair this file w/ the exact inference command, not assume the report settings match.

recorded run: the INDELible log names version 1.03 and a simulation start on August 17, 2025. The preserved control file uses amino-acid LG, a 231-residue root partition, and separate negative-binomial insertion/deletion settings.

[insertmodel] NB 0.20111364299347986 1
[deletemodel] NB 0.15814542722032005 1
[insertrate] 0.2364028748615396
[deleterate] 0.1868321406133841
[PARTITIONS] partitionname
  [treename modelname 231]

observed simulation log: 168 insertion events, 126 deletion events, average insertion length 1.16667 and average deletion length 1.1746. These are realized statistics for this run, not the input rate parameters or a cross-replicate mean.

audit issue: the narrative report describes symmetric insertion/deletion constraints, while this actual control file has unequal rates and unequal length parameters. Preserve the run configuration as evidence and resolve whether this was a deliberate diverse-condition run or a mismatch before making a matched-model comparison.

review question: which inference configuration corresponds exactly to this control file and realized data?

Historian: mean deletion length versus tc.

Historian: mean insertion length versus tc.