data/lastz-1.04.03/.gitignore:                                       ASCII text
data/lastz-1.04.03/LICENSE:                                          ASCII text
data/lastz-1.04.03/Makefile:                                         ASCII text
data/lastz-1.04.03/README.lastz.html:                                data
data/lastz-1.04.03/README.md:                                        ASCII text
data/lastz-1.04.03/docs/_config.yml:                                 ASCII text, with no line terminators
data/lastz-1.04.03/docs/hsx_format.html:                             HTML document, ASCII text
data/lastz-1.04.03/docs/images/after_chaining.png:                   PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/after_interpolation.png:              PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/aglobin_chained.png:                  PNG image data, 312 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/aglobin_closeup_gapped.png:           PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/aglobin_closeup_hsps.png:             PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/aglobin_closeup_seeds.png:            PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/aglobin_hsps.png:                     PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/aglobin_unchained.png:                PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/anchors_and_alignment.png:            PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/before_chaining.png:                  PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/before_interpolation.png:             PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/human_vs_chicken.png:                 PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/human_vs_chicken_full.png:            PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/seeds_and_hsps.png:                   PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/seq_vs_same.png:                      PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/seq_vs_same_notrivial.png:            PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/seq_vs_self.png:                      PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/seq_vs_self_no_mirror.png:            PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/word_count_table.png:                 PNG image data, 414 x 167, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/images/ydrop.png:                            PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/docs/index.html:                                  data
data/lastz-1.04.03/docs/lav_format.html:                             HTML document, ASCII text
data/lastz-1.04.03/hsx_format.html:                                  HTML document, ASCII text
data/lastz-1.04.03/images/after_chaining.png:                        PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/after_interpolation.png:                   PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/aglobin_chained.png:                       PNG image data, 312 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/aglobin_closeup_gapped.png:                PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/aglobin_closeup_hsps.png:                  PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/aglobin_closeup_seeds.png:                 PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/aglobin_hsps.png:                          PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/aglobin_unchained.png:                     PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/anchors_and_alignment.png:                 PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/before_chaining.png:                       PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/before_interpolation.png:                  PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/human_vs_chicken.png:                      PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/human_vs_chicken_full.png:                 PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/seeds_and_hsps.png:                        PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/seq_vs_same.png:                           PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/seq_vs_same_notrivial.png:                 PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/seq_vs_self.png:                           PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/seq_vs_self_no_mirror.png:                 PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/word_count_table.png:                      PNG image data, 414 x 167, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/images/ydrop.png:                                 PNG image data, 311 x 312, 8-bit/color RGB, non-interlaced
data/lastz-1.04.03/lav_format.html:                                  HTML document, ASCII text
data/lastz-1.04.03/make-include.mak:                                 ASCII text
data/lastz-1.04.03/src/align_diffs.c:                                C source, ASCII text
data/lastz-1.04.03/src/align_diffs.h:                                C source, ASCII text
data/lastz-1.04.03/src/axt.c:                                        C source, ASCII text
data/lastz-1.04.03/src/axt.h:                                        C source, ASCII text
data/lastz-1.04.03/src/build_options.h:                              C source, ASCII text
data/lastz-1.04.03/src/capsule.c:                                    C source, ASCII text
data/lastz-1.04.03/src/capsule.h:                                    C source, ASCII text
data/lastz-1.04.03/src/chain.c:                                      C source, ASCII text
data/lastz-1.04.03/src/chain.h:                                      C source, ASCII text
data/lastz-1.04.03/src/cigar.c:                                      C source, ASCII text
data/lastz-1.04.03/src/cigar.h:                                      C source, ASCII text
data/lastz-1.04.03/src/continuity_dist.c:                            C source, ASCII text
data/lastz-1.04.03/src/continuity_dist.h:                            C source, ASCII text
data/lastz-1.04.03/src/coverage_dist.c:                              C source, ASCII text
data/lastz-1.04.03/src/coverage_dist.h:                              C source, ASCII text
data/lastz-1.04.03/src/diag_hash.c:                                  C source, ASCII text
data/lastz-1.04.03/src/diag_hash.h:                                  C source, ASCII text
data/lastz-1.04.03/src/dna_utilities.h:                              C source, ASCII text
data/lastz-1.04.03/src/edit_script.c:                                C source, ASCII text
data/lastz-1.04.03/src/edit_script.h:                                C source, ASCII text
data/lastz-1.04.03/src/gapped_extend.c:                              C source, ASCII text
data/lastz-1.04.03/src/gapped_extend.h:                              C source, ASCII text
data/lastz-1.04.03/src/genpaf.c:                                     C source, ASCII text
data/lastz-1.04.03/src/genpaf.h:                                     C source, ASCII text
data/lastz-1.04.03/src/gfa.c:                                        C source, ASCII text
data/lastz-1.04.03/src/gfa.h:                                        C source, ASCII text
data/lastz-1.04.03/src/identity_dist.c:                              C source, ASCII text
data/lastz-1.04.03/src/identity_dist.h:                              C source, ASCII text
data/lastz-1.04.03/src/infer_scores.c:                               C source, ASCII text
data/lastz-1.04.03/src/infer_scores.h:                               C source, ASCII text
data/lastz-1.04.03/src/lastz.h:                                      C source, ASCII text
data/lastz-1.04.03/src/lav.c:                                        C source, ASCII text
data/lastz-1.04.03/src/lav.h:                                        C source, ASCII text
data/lastz-1.04.03/src/maf.c:                                        C source, ASCII text
data/lastz-1.04.03/src/maf.h:                                        C source, ASCII text
data/lastz-1.04.03/src/masking.c:                                    C source, ASCII text
data/lastz-1.04.03/src/masking.h:                                    C source, ASCII text
data/lastz-1.04.03/src/output.c:                                     C source, ASCII text
data/lastz-1.04.03/src/output.h:                                     C source, ASCII text
data/lastz-1.04.03/src/pos_table.c:                                  C source, ASCII text
data/lastz-1.04.03/src/pos_table.h:                                  C source, ASCII text
data/lastz-1.04.03/src/quantum.c:                                    C source, ASCII text
data/lastz-1.04.03/src/quantum.h:                                    C source, ASCII text
data/lastz-1.04.03/src/sam.c:                                        C source, ASCII text
data/lastz-1.04.03/src/sam.h:                                        C source, ASCII text
data/lastz-1.04.03/src/seed_search.c:                                C source, ASCII text
data/lastz-1.04.03/src/seed_search.h:                                C source, ASCII text
data/lastz-1.04.03/src/seeds.c:                                      C source, ASCII text
data/lastz-1.04.03/src/seeds.h:                                      C source, ASCII text
data/lastz-1.04.03/src/segment.c:                                    C source, ASCII text
data/lastz-1.04.03/src/segment.h:                                    C source, ASCII text
data/lastz-1.04.03/src/sequences.h:                                  C source, ASCII text
data/lastz-1.04.03/src/text_align.c:                                 C source, ASCII text
data/lastz-1.04.03/src/text_align.h:                                 C source, ASCII text
data/lastz-1.04.03/src/tweener.c:                                    C source, ASCII text
data/lastz-1.04.03/src/tweener.h:                                    C source, ASCII text
data/lastz-1.04.03/src/utilities.c:                                  C source, ASCII text
data/lastz-1.04.03/src/utilities.h:                                  C source, ASCII text
data/lastz-1.04.03/src/version.mak:                                  ASCII text
data/lastz-1.04.03/src/Makefile:                                     makefile script, ASCII text
data/lastz-1.04.03/src/sequences.c:                                  C source, ASCII text
data/lastz-1.04.03/src/dna_utilities.c:                              C source, ASCII text
data/lastz-1.04.03/src/lastz.c:                                      C source, ASCII text
data/lastz-1.04.03/test_data/aglobin.2bit:                           data
data/lastz-1.04.03/test_data/base_test.adaptive_k.gfa:               ASCII text
data/lastz-1.04.03/test_data/base_test.anchors.anchors:              ASCII text
data/lastz-1.04.03/test_data/base_test.anchors.maf:                  ASCII text, with very long lines
data/lastz-1.04.03/test_data/base_test.anchors_multi.anchors:        ASCII text
data/lastz-1.04.03/test_data/base_test.anchors_multi.maf:            ASCII text, with very long lines
data/lastz-1.04.03/test_data/base_test.chained.lav:                  ASCII text
data/lastz-1.04.03/test_data/base_test.coi.maf:                      ASCII text, with very long lines
data/lastz-1.04.03/test_data/base_test.default.axt:                  ASCII text, with very long lines
data/lastz-1.04.03/test_data/base_test.default.lav:                  ASCII text
data/lastz-1.04.03/test_data/base_test.extended.lav:                 ASCII text
data/lastz-1.04.03/test_data/base_test.float.lav:                    ASCII text
data/lastz-1.04.03/test_data/base_test.hits.lav:                     ASCII text
data/lastz-1.04.03/test_data/base_test.hsp.lav:                      ASCII text
data/lastz-1.04.03/test_data/base_test.hwseeded.lav:                 ASCII text
data/lastz-1.04.03/test_data/base_test.interpolated.lav:             ASCII text
data/lastz-1.04.03/test_data/base_test.mask.lav:                     ASCII text
data/lastz-1.04.03/test_data/base_test.masking.lav:                  ASCII text
data/lastz-1.04.03/test_data/base_test.multi.maf:                    ASCII text, with very long lines
data/lastz-1.04.03/test_data/base_test.multi_subrange.maf:           ASCII text
data/lastz-1.04.03/test_data/base_test.owseeded.gfa:                 ASCII text
data/lastz-1.04.03/test_data/base_test.pig_cat.lav:                  ASCII text
data/lastz-1.04.03/test_data/base_test.seeded.lav:                   ASCII text
data/lastz-1.04.03/test_data/base_test.subrange.lav:                 ASCII text
data/lastz-1.04.03/test_data/fake_apple.fa:                          ASCII text
data/lastz-1.04.03/test_data/fake_chimp_reads.2bit:                  data
data/lastz-1.04.03/test_data/fake_chimp_reads.csfasta:               ASCII text
data/lastz-1.04.03/test_data/fake_doggish_reads.2bit:                data
data/lastz-1.04.03/test_data/fake_orange_reads.fa:                   ASCII text
data/lastz-1.04.03/test_data/pseudocat.fa:                           ASCII text
data/lastz-1.04.03/test_data/pseudocat.nib:                          data
data/lastz-1.04.03/test_data/pseudopig.2bit:                         data
data/lastz-1.04.03/test_data/pseudopig.fa:                           ASCII text
data/lastz-1.04.03/test_data/pseudopig.n.mask:                       ASCII text
data/lastz-1.04.03/test_data/pseudopig.x.mask:                       ASCII text
data/lastz-1.04.03/test_data/pseudopig2.fa:                          ASCII text
data/lastz-1.04.03/test_data/pseudopig2.nib:                         data
data/lastz-1.04.03/test_data/sample_101s.fa:                         ASCII text
data/lastz-1.04.03/test_data/sample_101s.fastq:                      ASCII text
data/lastz-1.04.03/test_data/sample_101s.mapped:                     ASCII text
data/lastz-1.04.03/test_data/shorties.2bit:                          data
data/lastz-1.04.03/test_data/shorties.fa:                            ASCII text
data/lastz-1.04.03/test_data/shorties.names:                         ASCII text
data/lastz-1.04.03/test_results/README:                              ASCII text
data/lastz-1.04.03/tools/create_scores_file.control:                 ASCII text
data/lastz-1.04.03/tools/create_scores_file.sh:                      Bourne-Again shell script, ASCII text executable
data/lastz-1.04.03/tools/any_to_qdna.py:                             Python script, ASCII text executable
data/lastz-1.04.03/tools/axt_compare.py:                             Python script, ASCII text executable
data/lastz-1.04.03/tools/build_fasta_hsx.py:                         Python script, ASCII text executable
data/lastz-1.04.03/tools/expand_scores_file.py:                      Python script, ASCII text executable
data/lastz-1.04.03/tools/fasta_fragments.py:                         Python script, ASCII text executable
data/lastz-1.04.03/tools/fasta_softmask_intervals.py:                Python script, ASCII text executable
data/lastz-1.04.03/tools/gfa_compare.py:                             Python script, ASCII text executable
data/lastz-1.04.03/tools/hassock_hash.py:                            Python script, ASCII text executable
data/lastz-1.04.03/tools/hsx_file.py:                                Python script, ASCII text executable
data/lastz-1.04.03/tools/install_py.py:                              Python script, ASCII text executable
data/lastz-1.04.03/tools/lav_compare.py:                             Python script, ASCII text executable
data/lastz-1.04.03/tools/lav_sort.py:                                Python script, ASCII text executable
data/lastz-1.04.03/tools/maf_sort.py:                                Python script, ASCII text executable
data/lastz-1.04.03/tools/merge_masking_intervals.py:                 Python script, ASCII text executable
data/lastz-1.04.03/tools/pick_from_fasta_hsx.py:                     Python script, ASCII text executable
data/lastz-1.04.03/tools/probabilities_to_scores.py:                 Python script, ASCII text executable
data/lastz-1.04.03/tools/qcode_to_scores.py:                         Python script, ASCII text executable
data/lastz-1.04.03/debian/README.test:                               UTF-8 Unicode text
data/lastz-1.04.03/debian/changelog:                                 ASCII text
data/lastz-1.04.03/debian/control:                                   UTF-8 Unicode text
data/lastz-1.04.03/debian/copyright:                                 ASCII text
data/lastz-1.04.03/debian/createmanpages:                            POSIX shell script, ASCII text executable
data/lastz-1.04.03/debian/lastz-examples.install:                    ASCII text
data/lastz-1.04.03/debian/lastz.1:                                   troff or preprocessor input, UTF-8 Unicode text
data/lastz-1.04.03/debian/lastz.docs:                                ASCII text
data/lastz-1.04.03/debian/lastz.install:                             ASCII text
data/lastz-1.04.03/debian/lastz.links:                               ASCII text
data/lastz-1.04.03/debian/manpages:                                  ASCII text
data/lastz-1.04.03/debian/patches/2to3.patch:                        unified diff output, ASCII text
data/lastz-1.04.03/debian/patches/fix_signed_char.patch:             unified diff output, ASCII text
data/lastz-1.04.03/debian/patches/propagate_cflags.patch:            unified diff output, ASCII text
data/lastz-1.04.03/debian/patches/series:                            ASCII text
data/lastz-1.04.03/debian/patches/spelling.patch:                    unified diff output, ASCII text
data/lastz-1.04.03/debian/rules:                                     a /usr/bin/make -f script, ASCII text executable
data/lastz-1.04.03/debian/salsa-ci.yml:                              ASCII text
data/lastz-1.04.03/debian/source/format:                             ASCII text
data/lastz-1.04.03/debian/tests/Makefile:                            ASCII text
data/lastz-1.04.03/debian/tests/control:                             ASCII text
data/lastz-1.04.03/debian/tests/run-unit-test:                       Bourne-Again shell script, ASCII text executable
data/lastz-1.04.03/debian/upstream/metadata:                         ASCII text
data/lastz-1.04.03/debian/watch:                                     ASCII text
data/lastz-1.04.03/.pc/.version:                                     ASCII text
data/lastz-1.04.03/.pc/.quilt_patches:                               ASCII text
data/lastz-1.04.03/.pc/.quilt_series:                                ASCII text
data/lastz-1.04.03/.pc/applied-patches:                              ASCII text
data/lastz-1.04.03/.pc/propagate_cflags.patch/src/Makefile:          makefile script, ASCII text
data/lastz-1.04.03/.pc/2to3.patch/tools/any_to_qdna.py:              Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/axt_compare.py:              Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/build_fasta_hsx.py:          Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/expand_scores_file.py:       Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/fasta_fragments.py:          Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/fasta_softmask_intervals.py: Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/gfa_compare.py:              Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/hassock_hash.py:             Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/hsx_file.py:                 Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/install_py.py:               Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/lav_compare.py:              Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/lav_sort.py:                 Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/maf_sort.py:                 Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/merge_masking_intervals.py:  Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/pick_from_fasta_hsx.py:      Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/probabilities_to_scores.py:  Python script, ASCII text executable
data/lastz-1.04.03/.pc/2to3.patch/tools/qcode_to_scores.py:          Python script, ASCII text executable
data/lastz-1.04.03/.pc/fix_signed_char.patch/src/sequences.c:        C source, ASCII text
data/lastz-1.04.03/.pc/spelling.patch/src/dna_utilities.c:           C source, ASCII text
data/lastz-1.04.03/.pc/spelling.patch/src/lastz.c:                   C source, ASCII text