|
Functions |
| static void | make_p_ptrs (sint *tptr, sint *pl, sint naseq, sint l) |
| static void | make_n_ptrs (sint *tptr, sint *pl, sint naseq, sint len) |
| static void | put_frag (sint fs, sint v1, sint v2, sint flen) |
| static sint | frag_rel_pos (sint a1, sint b1, sint a2, sint b2) |
| static void | des_quick_sort (sint *array1, sint *array2, sint array_size) |
| static void | pair_align (sint seq_no, sint l1, sint l2) |
| void | show_pair (sint istart, sint iend, sint jstart, sint jend) |
Variables |
| sint * | seqlen_array |
| char ** | seq_array |
| sint | dna_ktup |
| sint | dna_window |
| sint | dna_wind_gap |
| sint | dna_signif |
| sint | prot_ktup |
| sint | prot_window |
| sint | prot_wind_gap |
| sint | prot_signif |
| sint | nseqs |
| Boolean | dnaflag |
| double ** | tmat |
| sint | max_aa |
| sint | max_aln_length |
| static sint | next |
| static sint | curr_frag |
| static sint | maxsf |
| static sint | vatend |
| static sint ** | accum |
| static sint * | diag_index |
| static char * | slopes |
| sint | ktup |
| sint | window |
| sint | wind_gap |
| sint | signif |
| sint * | displ |
| sint * | zza |
| sint * | zzb |
| sint * | zzc |
| sint * | zzd |
| Boolean | percent |
