###SUPPLEMENTARY DATA 1. mDNC-based diagnoses for tested query taxa. #Script used to generate the data: Scripts/MolD_mDNC.py#Core-functions of MolD Scripts/Check_spp_variable_CodonPos_Synonymous_non_synonymous_substs.py#Generated content for the tables 1 and S2 #Output files in the directory: MolD_mDNC_outputs/ #Data representation in the paper: Table S2 ###SUPPLEMENTARY DATA 2. mDNC h-resampling. #Script used to generate the data: Scripts/MolD_qHaps_weighted_resampling_mDNC_new1_AAdefining_separately.py #resampling Scripts/Plot_RESAMPLING_mDNC_lengths_separately_scatter.py#plotting Scripts/Plot_RESAMPLING_mDNC_lengths_together_scatter.py#plotting Scripts/Plot_RESAMPLING_mDNC_new_mult_with_correlation.py#plotting and correlation calculation #Output files in the directory: mDNC_h-resampling/ #Data representation in the paper: Fig 3, 4, S1-S3. Table S5 ###SUPPLEMENTARY DATA 3. rDNC-based diagnoses for tested query taxa. #Script used to generate the data: Scripts/MolD_rDNC_20-10.py# MAIN SOFTWARE FILE Scripts/MolD_rDNCx10#checks reproducibility of output x10 Scripts/MolD_rDNCx30#checks reproducibility of output x30 Scripts/Plot_rDNC_x30-2.py #Output files in the directory: MolD_rDNC_outputs/ #Data representation in the paper: Tables S3, S4 Fig. 5 ###SUPPLEMENTARY DATA 4. rDNC h-resampling. #Script used to generate the data: Scripts/MolD_qHaps_weighted_resampling_rDNC_nosyn_basic.py#resampling Scripts/Plot_RESAMPLING_rDNC_new_mult.py#plotting #Output files in the directory: rDNC_h-resampling/ #Data representation in the paper: Fig. 6 A-C ###SUPPLEMENTARY DATA 5. rDNC hspp-resampling. #Script used to generate the data: Scripts/MolD_qHaps_AND_refSPP_weighted_resampling_rDNC_nosyn_basic.py#resampling Scripts/Plot_RESAMPLING_rDNC_new_mult.py#plotting #Output files in the directory: rDNC_hspp-resampling/ #Data representation in the paper: Fig. 6 D-I ###SUPPLEMENTARY DATA 6. Probability of sampling an mDNCs of different lengths Scripts/Probability_to_sample_an_mDNC.py