# HG changeset patch
# User jvolkening
# Date 1633024471 0
# Node ID d491c23394f94519afd4e1c5b0b2ccf985b35abe
"planemo upload for repository https://github.com/jvolkening/galaxy-tools/tree/master/tools/krakentools"
diff -r 000000000000 -r d491c23394f9 extract_kraken_reads.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/extract_kraken_reads.xml Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,282 @@
+
diff -r 000000000000 -r d491c23394f9 kreport2krona.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/kreport2krona.xml Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,114 @@
+
+ Convert a Kraken/Kraken2 report to a Krona-compatible text file
+
+ macros.xml
+
+
+
+ echo -n @TOOL_VERSION@
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+ MYSAMPLE.KRAKEN2
+ kreport2krona.py --report MYSAMPLE.KREPORT --output MYSAMPLE.krona
+ ktImportText MYSAMPLE.krona -o MYSAMPLE.krona.html
+
+-------------------
+
+**Command-line arguments**
+
+-------------------
+
+The following command-line usage corresponds with the Galaxy wrapper
+parameters::
+
+ usage: kreport2krona.py [-h] -r R_FILE -o O_FILE [--intermediate-ranks] [--no-intermediate-ranks]
+
+ optional arguments:
+ -h, --help show this help message and exit
+ -r R_FILE, --report-file R_FILE, --report R_FILE
+ Input kraken report file for converting
+ -o O_FILE, --output O_FILE
+ Output krona-report file name
+ --intermediate-ranks Include non-traditional taxonomic ranks in output
+ --no-intermediate-ranks
+ Do not include non-traditional taxonomic ranks in output [default: no intermediate ranks]
+
+--------------------
+
+**More Information**
+
+--------------------
+
+Author: Jennifer Lu
+
+See the `online documentation`_
+
+.. _`online documentation`: https://github.com/jenniferlu717/KrakenTools#kreport2kronapy
+
+--------------------
+
+**Galaxy Wrapper Development**
+
+--------------------
+
+Author: Jeremy Volkening
+
+ ]]>
+
+
+
+
diff -r 000000000000 -r d491c23394f9 macros.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/macros.xml Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,35 @@
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+ krakentools
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+ 1.2
+ 1
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+ @misc{Lu2021,
+ author = {Lu, Jennifer},
+ year = {2021},
+ title = {KrakenTools},
+ publisher = {GitHub},
+ journal = {GitHub repository},
+ url = {https://github.com/jenniferlu717/KrakenTools},
+ }
+
+
+
+
+
diff -r 000000000000 -r d491c23394f9 test-data/R1.fq.gz
Binary file test-data/R1.fq.gz has changed
diff -r 000000000000 -r d491c23394f9 test-data/R2.fq.gz
Binary file test-data/R2.fq.gz has changed
diff -r 000000000000 -r d491c23394f9 test-data/kraken1.report
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/kraken1.report Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,18 @@
+ 6.79 38 38 U 0 unclassified
+ 93.21 522 0 - 1 root
+ 93.21 522 0 D 10239 Viruses
+ 88.75 497 0 - 35237 dsDNA viruses, no RNA stage
+ 88.75 497 0 O 548681 Herpesvirales
+ 88.75 497 0 F 10292 Herpesviridae
+ 88.75 497 0 - 10293 Alphaherpesvirinae
+ 88.75 497 0 G 180255 Iltovirus
+ 88.75 497 497 S 10386 Gallid herpesvirus 1
+ 4.46 25 0 - 439488 ssRNA viruses
+ 4.46 25 0 - 35301 ssRNA negative-strand viruses
+ 4.46 25 0 O 11157 Mononegavirales
+ 4.46 25 0 F 11158 Paramyxoviridae
+ 4.46 25 0 G 260963 Avulavirus
+ 3.57 20 0 - 336096 unclassified Avulavirus
+ 3.57 20 20 S 204987 Goose paramyxovirus SF02
+ 0.89 5 0 S 11176 Newcastle disease virus
+ 0.89 5 5 - 139270 Newcastle disease virus B1
diff -r 000000000000 -r d491c23394f9 test-data/kraken1.results
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/kraken1.results Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,560 @@
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diff -r 000000000000 -r d491c23394f9 test-data/kraken2.report
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/kraken2.report Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,73 @@
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diff -r 000000000000 -r d491c23394f9 test-data/kraken2.results
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/kraken2.results Thu Sep 30 17:54:31 2021 +0000
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diff -r 000000000000 -r d491c23394f9 test-data/krakenU.report
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/krakenU.report Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,1305 @@
+# KrakenUniq v0.5.8 DATE:2021-09-21T05:28:21Z DB:./db1 ./db2 ./db3 ./db4 ./db5 ./db6 ./db7 ./db8 ./db9 DB_SIZE:43487608 WD:/tmp/nxf.LS2KtRM0fv
+# CL:perl /opt/conda/envs/nf/bin/krakenuniq --db db1 --db db2 --db db3 --db db4 --db db5 --db db6 --db db7 --db db8 --db db9 --threads 64 --report-file lowfilt.report.pre --output lowfilt.results --paired lowfilt.qfilt.R1_val_1.rmspikein.fq lowfilt.qfilt.R2_val_2.rmspikein.fq
+
+% reads taxReads kmers dup cov taxID rank taxName
+2.18 1681 1681 12617084 1.2 NA 0 no rank unclassified
+97.82 75426 277 1886797 1.23 7.482e-05 1 no rank root
+95.62 73730 29 1742828 1.21 7.188e-05 131567 no rank cellular organisms
+93.26 71908 380 1704354 1.21 9.69e-05 2 superkingdom Bacteria
+44.5 34310 59 797434 1.21 0.0001228 1783272 clade Terrabacteria group
+29.93 23076 82 557233 1.2 0.0002134 1239 phylum Firmicutes
+20.77 16015 73 379200 1.22 0.0003627 91061 class Bacilli
+12.81 9880 45 253369 1.19 0.0003098 1385 order Bacillales
+4.103 3164 10 102496 1.16 0.00027 186817 family Bacillaceae
+4.088 3152 963 100677 1.16 0.001024 1386 genus Bacillus
+2.521 1944 1944 46683 1.13 0.07898 1963032 species Bacillus intestinalis
+0.284 219 150 4091 1.26 0.0002188 86661 species group Bacillus cereus group
+0.05447 42 42 1083 1.29 0.001994 2026186 species Bacillus paranthracis
+0.009078 7 7 226 1.29 0.0004816 2026188 species Bacillus tropicus
+0.007781 6 6 208 1.21 0.00036 2026190 species Bacillus mobilis
+0.005188 4 4 170 1.21 4.36e-05 1396 species Bacillus cereus
+0.003891 3 3 75 1.29 0.0001177 2026189 species Bacillus albus
+0.002594 2 2 56 1.16 0.0001006 2026193 species Bacillus nitratireducens
+0.002594 2 2 62 1.27 0.0002833 1392 species Bacillus anthracis
+0.001297 1 1 44 1.27 0.0001063 2026191 species Bacillus luti
+0.001297 1 1 66 1.26 8.275e-05 1890302 species Bacillus wiedmannii
+0.001297 1 1 70 1.19 5.253e-05 1428 species Bacillus thuringiensis
+0.01816 14 0 1824 1.22 5.778e-05 185979 no rank unclassified Bacillus (in: Bacteria)
+0.01167 9 9 1141 1.25 0.002064 2597270 species Bacillus sp. P16(2019)
+0.006484 5 5 681 1.19 4.507e-05 1409 species Bacillus sp. (in: Bacteria)
+0.01038 8 6 3457 1.41 0.0003944 653685 species group Bacillus subtilis group
+0.002594 2 2 1721 1.15 0.002671 483913 species Bacillus inaquosorum
+0.002594 2 2 119 1.18 0.0002753 230954 species Bacillus thermozeamaize
+0.001297 1 1 179 1.23 0.0004264 408580 species Bacillus coahuilensis
+0.001297 1 1 61 1.36 0.000156 2039284 species Bacillus fungorum
+0.001297 1 0 42 1.17 4.106e-06 84406 genus Virgibacillus
+0.001297 1 1 37 1.19 6.655e-05 1638645 species Virgibacillus kapii
+0.001297 1 0 5 1 1.141e-06 704093 genus Anaerobacillus
+0.001297 1 0 2 1 8.059e-07 2625356 no rank unclassified Anaerobacillus
+0.001297 1 1 2 1 8.059e-07 1872506 species Anaerobacillus sp.
+3.84 2961 27 58221 1.28 0.001726 90964 family Staphylococcaceae
+3.803 2932 321 56780 1.27 0.002658 1279 genus Staphylococcus
+1.935 1492 1492 25704 1.26 0.07286 1280 species Staphylococcus aureus
+1.414 1090 1090 20177 1.19 0.06293 1282 species Staphylococcus epidermidis
+0.01038 8 8 231 1.31 0.0002607 1283 species Staphylococcus haemolyticus
+0.007781 6 6 92 1.54 0.0002367 29388 species Staphylococcus capitis
+0.005188 4 4 121 1.34 0.0001435 246432 species Staphylococcus equorum
+0.003891 3 3 197 1.42 0.0003064 29385 species Staphylococcus saprophyticus
+0.002594 2 0 191 1.33 0.0002059 2815305 species group Staphylococcus intermedius group
+0.002594 2 2 191 1.33 0.0005719 1986155 species Staphylococcus cornubiensis
+0.001297 1 1 4 2.25 1.273e-05 985762 species Staphylococcus agnetis
+0.001297 1 1 2 1 3.537e-06 45972 species Staphylococcus pasteuri
+0.001297 1 1 207 1.28 0.0006984 33028 species Staphylococcus saccharolyticus
+0.001297 1 1 65 1.26 0.0002577 2282419 species Staphylococcus pseudoxylosus
+0.001297 1 1 53 1.28 7.542e-05 1293 species Staphylococcus gallinarum
+0.001297 1 1 20 1.2 6.233e-05 1281 species Staphylococcus carnosus
+0.001297 1 0 108 1.44 3.095e-05 69965 genus Macrococcus
+0.001297 1 0 60 1.48 0.0001285 2619255 no rank unclassified Macrococcus
+0.001297 1 1 60 1.48 0.0001285 1871621 species Macrococcus sp.
+0.001297 1 0 52 1.08 3.132e-05 2803850 genus Mammaliicoccus
+0.001297 1 1 30 1.13 4.953e-05 42858 species Mammaliicoccus lentus
+2.803 2161 0 53804 1.2 0.00458 186820 family Listeriaceae
+2.803 2161 430 53804 1.2 0.004844 1637 genus Listeria
+2.187 1686 1686 32642 1.2 0.03524 1639 species Listeria monocytogenes
+0.05447 42 0 5653 1.21 0.002214 2642072 no rank unclassified Listeria
+0.05447 42 42 5653 1.21 0.002214 1960103 species Listeria sp.
+0.002594 2 2 10 1.2 2.441e-05 1640 species Listeria seeligeri
+0.001297 1 1 7 1.14 2.225e-05 1642 species Listeria innocua
+1.984 1530 59 32783 1.18 0.0001172 186822 family Paenibacillaceae
+1.899 1464 3 30923 1.17 0.03542 76632 genus Thermobacillus
+1.895 1461 1461 30364 1.17 0.06785 377615 species Thermobacillus composti
+0.005188 4 0 113 1.54 0.0003045 2767206 genus Candidatus Reconcilibacillus
+0.005188 4 4 113 1.54 0.0003045 1906605 species Candidatus Reconcilbacillus cellulovorans
+0.002594 2 0 107 1.29 5.395e-06 55080 genus Brevibacillus
+0.001297 1 1 29 1 1.762e-05 54915 species Brevibacillus reuszeri
+0.001297 1 0 77 1.4 2.428e-05 2684853 no rank unclassified Brevibacillus
+0.001297 1 1 77 1.4 3.358e-05 1882945 species Brevibacillus sp.
+0.001297 1 0 211 1.2 9.438e-07 44249 genus Paenibacillus
+0.001297 1 1 14 1.36 1.986e-05 1737354 species Paenibacillus radicis
+0.02334 18 0 749 1.44 4.451e-05 539002 no rank Bacillales incertae sedis
+0.02334 18 0 616 1.44 0.000221 539738 no rank Bacillales Family XI. Incertae Sedis
+0.02334 18 0 616 1.44 0.000221 1378 genus Gemella
+0.02334 18 0 611 1.44 0.0006785 2624949 no rank unclassified Gemella
+0.02334 18 18 611 1.44 0.0006785 1966354 species Gemella sp.
+0.001297 1 0 97 1.22 1.966e-06 186818 family Planococcaceae
+0.001297 1 0 47 1.23 0.0001369 194985 no rank unclassified Planococcaceae
+0.001297 1 1 47 1.23 0.0001369 1953061 species Planococcaceae bacterium UBA3370
+7.862 6062 54 119409 1.29 0.0005415 186826 order Lactobacillales
+2.788 2150 107 41437 1.35 0.0004208 33958 family Lactobacillaceae
+2.624 2023 21 37777 1.33 0.005332 2742598 genus Limosilactobacillus
+2.593 1999 1999 36319 1.34 0.1122 1613 species Limosilactobacillus fermentum
+0.002594 2 2 577 1.27 0.002744 1450649 species Limosilactobacillus gorillae
+0.001297 1 1 22 1.5 4.575e-05 97478 species Limosilactobacillus mucosae
+0.02334 18 7 485 1.13 4.516e-05 1578 genus Lactobacillus
+0.01038 8 8 117 1.08 0.0005589 1596 species Lactobacillus gasseri
+0.003891 3 3 81 1.12 0.0003862 2107999 species Lactobacillus paragasseri
+0.001297 1 0 59 1.29 1.226e-05 2767887 genus Ligilactobacillus
+0.001297 1 0 55 1.29 0.0002153 2767920 no rank unclassified Ligilactobacillus
+0.001297 1 1 55 1.29 0.0002153 2767921 species Ligilactobacillus sp.
+0.001297 1 0 22 1.14 7.19e-06 1253 genus Pediococcus
+0.001297 1 1 2 2 7.326e-06 319653 species Pediococcus ethanolidurans
+2.532 1952 8 37717 1.2 0.0009686 81852 family Enterococcaceae
+2.513 1938 47 37239 1.19 0.001227 1350 genus Enterococcus
+2.446 1886 1886 35200 1.19 0.04042 1351 species Enterococcus faecalis
+0.002594 2 2 62 1.31 8.211e-05 53345 species Enterococcus durans
+0.001297 1 1 15 1.2 4.257e-05 214095 species Enterococcus canis
+0.001297 1 1 31 1.16 9.541e-05 1640685 species Enterococcus massiliensis
+0.001297 1 1 51 1.27 6.459e-05 1353 species Enterococcus gallinarum
+0.007781 6 0 253 1.11 4.217e-05 2737 genus Vagococcus
+0.007781 6 6 208 1.09 0.0005309 2739 species Vagococcus salmoninarum
+2.472 1906 3 39563 1.25 0.0006871 1300 family Streptococcaceae
+2.467 1902 321 39278 1.24 0.0007851 1301 genus Streptococcus
+1.738 1340 1340 21469 1.27 0.09213 1309 species Streptococcus mutans
+0.1881 145 145 2955 1.14 0.009257 1311 species Streptococcus agalactiae
+0.06874 53 53 1161 1.15 0.005805 1314 species Streptococcus pyogenes
+0.02723 21 15 596 1.25 0.0004456 671232 species group Streptococcus anginosus group
+0.007781 6 6 316 1.26 0.0009571 1338 species Streptococcus intermedius
+0.006484 5 5 182 1.12 0.001166 1111760 species Streptococcus troglodytae
+0.005188 4 4 116 1.16 0.0004834 1339 species Streptococcus macacae
+0.002594 2 0 176 1.22 2.336e-05 2608887 no rank unclassified Streptococcus
+0.002594 2 2 176 1.22 2.336e-05 1306 species Streptococcus sp.
+0.002594 2 2 60 1 0.0002295 149016 species Streptococcus urinalis
+0.002594 2 2 49 1.16 1.655e-05 1303 species Streptococcus oralis
+0.001297 1 1 21 1.29 5.252e-06 28037 species Streptococcus mitis
+0.001297 1 1 5 1 1.906e-05 1917441 species Streptococcus ruminantium
+0.001297 1 1 19 1.16 0.0001623 150055 species Streptococcus lutetiensis
+0.001297 1 1 23 1.13 4.443e-05 1349 species Streptococcus uberis
+0.001297 1 1 6 1 2.214e-05 1317 species Streptococcus downei
+0.001297 1 0 120 1.26 0.0001309 119603 species group Streptococcus dysgalactiae group
+0.001297 1 1 116 1.27 0.0002219 1334 species Streptococcus dysgalactiae
+0.001297 1 1 51 1.49 0.000184 1080071 species Streptococcus orisasini
+0.001297 1 0 57 1.02 8.309e-06 1357 genus Lactococcus
+0.001297 1 1 13 1 2.958e-05 1940789 species Lactococcus petauri
+9.041 6971 11 171755 1.15 0.0001335 186801 class Clostridia
+9.015 6951 52 171007 1.15 0.0001428 186802 order Eubacteriales
+5.058 3900 12 90727 1.17 0.001943 186807 family Peptococcaceae
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+3.841 2962 2961 63755 1.18 0.1188 885581 species Desulfosporosinus acidiphilus
+0.001297 1 1 166 1.49 0.3144 646529 subspecies Desulfosporosinus acidiphilus SJ4
+0.9545 736 736 15090 1.14 0.03799 79209 species Desulfosporosinus meridiei
+0.05058 39 0 4163 1.16 0.0005576 2633794 no rank unclassified Desulfosporosinus
+0.05058 39 39 4163 1.16 0.0005576 157907 species Desulfosporosinus sp.
+0.001297 1 1 467 1.26 0.0008942 476652 species Desulfosporosinus acididurans
+0.001297 1 0 65 1.18 1.468e-05 191373 genus Pelotomaculum
+0.001297 1 0 45 1.09 1.474e-05 2621639 no rank unclassified Pelotomaculum
+0.001297 1 1 36 1.08 8.643e-05 1811696 species Pelotomaculum sp. PtaU1.Bin065
+1.757 1355 12 29314 1.18 0.01134 2867375 family Desulfallaceae
+1.742 1343 0 28866 1.18 0.03159 2867376 genus Desulfoscipio
+1.742 1343 1343 28857 1.18 0.05589 102134 species Desulfoscipio gibsoniae
+1.223 943 1 22343 1.24 0.0001332 31979 family Clostridiaceae
+1.218 939 51 22058 1.24 0.0002023 1485 genus Clostridium
+0.6977 538 538 10683 1.1 0.01695 1492 species Clostridium butyricum
+0.3411 263 263 6414 1.3 0.002355 1520 species Clostridium beijerinckii
+0.105 81 81 1630 1.16 0.002339 1502 species Clostridium perfringens
+0.005188 4 0 419 1.25 1.288e-05 2614128 no rank unclassified Clostridium
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+0.002594 2 2 100 1.08 4.109e-06 1898204 species Clostridiaceae bacterium
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+0.2153 166 166 3571 1.05 0.01066 301301 species Roseburia hominis
+0.01427 11 11 205 1 0.0005334 166486 species Roseburia intestinalis
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+0.1945 150 1 5559 1.05 0.001579 207244 genus Anaerostipes
+0.1932 149 149 5248 1.05 0.005334 649756 species Anaerostipes hadrus
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+0.001297 1 1 78 1.06 5.17e-06 1955243 species Blautia sp.
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+0.02334 18 0 417 1.32 0.0001205 2676056 no rank unclassified Schaedlerella
+0.02334 18 18 417 1.32 0.0001205 2676057 species Schaedlerella sp.
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+0.006484 5 0 85 1.32 1.206e-05 2633901 no rank unclassified Acetatifactor
+0.006484 5 5 85 1.32 1.206e-05 1872090 species Acetatifactor sp.
+0.003891 3 0 105 1.19 4.022e-05 2005355 genus Faecalimonas
+0.003891 3 0 105 1.19 4.85e-05 2624616 no rank unclassified Faecalimonas
+0.003891 3 3 105 1.19 4.85e-05 2005356 species Faecalimonas sp.
+0.003891 3 0 142 1.27 3.656e-05 1766253 genus Agathobacter
+0.003891 3 0 142 1.27 4.025e-05 2641574 no rank unclassified Agathobacter
+0.003891 3 3 142 1.27 4.025e-05 2021311 species Agathobacter sp.
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+0.001297 1 1 36 1 2.778e-05 1918627 species Frisingicoccus sp.
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+0.001297 1 1 36 1 4.501e-05 1564487 species Herbinix hemicellulosilytica
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+0.001297 1 1 22 1 2.527e-06 2053608 species Ruminiclostridium sp.
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+0.01038 8 0 517 1.05 1.1e-05 1730 genus Eubacterium
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+0.003891 3 0 233 1.23 2.692e-06 39779 no rank unclassified Eubacteriales
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+0.009078 7 0 142 1.56 2.336e-05 543371 family Thermoanaerobacterales Family III. Incertae Sedis
+0.009078 7 7 142 1.56 4.864e-05 44000 genus Caldicellulosiruptor
+0.002594 2 0 146 1.01 2.921e-06 348841 no rank unclassified Clostridia
+0.002594 2 2 145 1.01 3.096e-06 2044939 species Clostridia bacterium
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+0.002594 2 2 132 1.17 0.0005686 1981334 species Finegoldia sp.
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+0.001297 1 1 5 1 5.364e-06 41274 species Tissierella sp.
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+0.002594 2 0 135 1.07 5.231e-06 31977 family Veillonellaceae
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+0.001297 1 0 72 1 6.297e-06 909930 family Acidaminococcaceae
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+0.001297 1 0 63 1 1.476e-05 2639160 no rank unclassified Phascolarctobacterium
+0.001297 1 1 63 1 1.476e-05 2049039 species Phascolarctobacterium sp.
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+11.49 8860 24 167245 1.33 6.084e-05 1760 class Actinomycetia
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+10.95 8443 27 157343 1.32 0.004683 31953 family Bifidobacteriaceae
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+0.03761 29 29 2096 1.34 0.0004825 41200 species Bifidobacterium sp.
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+0.001297 1 1 79 1.43 0.0002544 2020964 species Bifidobacterium margollesii
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+0.2931 226 0 4617 1.11 0.00636 316606 family Segniliparaceae
+0.2931 226 0 4617 1.11 0.00636 286801 genus Segniliparus
+0.2931 226 226 4593 1.11 0.01345 286802 species Segniliparus rotundus
+0.07003 54 0 1307 1.17 2.577e-05 1653 family Corynebacteriaceae
+0.07003 54 2 1307 1.17 2.577e-05 1716 genus Corynebacterium
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+0.002594 2 2 40 1.65 0.0002388 161889 species Corynebacterium lipophiloflavum
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+0.02464 19 0 293 1.11 2.13e-06 1763 genus Mycobacterium
+0.01427 11 0 153 1.11 2.74e-05 120793 species group Mycobacterium avium complex (MAC)
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+0.002594 2 2 21 1 1.747e-05 39693 species Mycobacterium porcinum
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+0.05706 44 0 602 1.85 8.932e-07 2062 family Streptomycetaceae
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+0.001297 1 1 4 1.25 2.339e-07 1871188 species Kitasatospora sp.
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+0.03502 27 1 357 1.03 9.701e-06 31957 family Propionibacteriaceae
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+0.001297 1 1 21 1 6.345e-05 2559073 species Cutibacterium modestum
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+0.007781 6 0 157 1.29 4.09e-06 2049 family Actinomycetaceae
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+0.001297 1 0 7 1 1.067e-06 2609248 no rank unclassified Actinomyces
+0.001297 1 1 6 1 2.78e-05 712118 species Actinomyces sp. oral taxon 172
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+0.002594 2 0 321 1.36 2.449e-06 1268 family Micrococcaceae
+0.001297 1 0 100 1.34 1.973e-06 1663 genus Arthrobacter
+0.001297 1 0 88 1.35 2.856e-06 235627 no rank unclassified Arthrobacter
+0.001297 1 1 88 1.35 3.06e-06 1667 species Arthrobacter sp.
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+0.001297 1 0 219 1.26 9.028e-07 85023 family Microbacteriaceae
+0.001297 1 0 136 1.29 1.683e-06 33882 genus Microbacterium
+0.001297 1 0 115 1.33 2.658e-06 2609290 no rank unclassified Microbacterium
+0.001297 1 1 115 1.33 2.658e-06 51671 species Microbacterium sp.
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+0.003891 3 0 191 1.24 1.29e-06 28056 family Micromonosporaceae
+0.003891 3 0 184 1.25 2.451e-06 1873 genus Micromonospora
+0.001297 1 1 6 1.33 1.12e-05 709868 species Micromonospora ureilytica
+0.001297 1 0 47 1.15 1.966e-06 2617518 no rank unclassified Micromonospora
+0.001297 1 1 47 1.15 1.966e-06 1876 species Micromonospora sp.
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+0.002594 2 0 136 1.26 1.079e-05 1217098 order Jiangellales
+0.002594 2 0 136 1.26 1.079e-05 1217100 family Jiangellaceae
+0.002594 2 0 136 1.26 1.64e-05 281472 genus Jiangella
+0.002594 2 2 134 1.27 0.0001792 2670374 species Jiangella anatolica
+0.001297 1 0 101 1.41 5.429e-07 85012 order Streptosporangiales
+0.001297 1 0 86 1.36 9.969e-07 2004 family Streptosporangiaceae
+0.001297 1 0 10 1 9.902e-07 2000 genus Streptosporangium
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+0.001297 1 0 116 1.2 5.458e-07 85010 order Pseudonocardiales
+0.001297 1 0 116 1.2 5.515e-07 2070 family Pseudonocardiaceae
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+0.001297 1 0 40 1.2 2.815e-06 2618356 no rank unclassified Amycolatopsis
+0.001297 1 1 40 1.2 2.815e-06 37632 species Amycolatopsis sp.
+0.8378 646 22 18724 1.14 0.000231 84998 class Coriobacteriia
+0.8054 621 2 18232 1.12 0.0003443 84999 order Coriobacteriales
+0.498 384 1 7823 1.16 0.0005664 1643824 family Atopobiaceae
+0.4967 383 6 7756 1.16 0.0008109 133925 genus Olsenella
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+0.001297 1 0 78 1.24 1.07e-05 2638792 no rank unclassified Olsenella
+0.001297 1 1 78 1.24 1.103e-05 2042683 species Olsenella sp.
+0.3048 235 2 10146 1.09 0.0002664 84107 family Coriobacteriaceae
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+0.1089 84 0 4780 1.15 0.0003234 2637548 no rank unclassified Collinsella
+0.1089 84 84 4774 1.15 0.0003502 1965294 species Collinsella sp.
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+0.005188 4 4 65 1.89 0.0002068 2509433 species Senegalimassilia faecalis
+0.001297 1 0 108 1.37 8.43e-06 331631 no rank environmental samples
+0.001297 1 1 108 1.37 8.43e-06 331632 species uncultured Coriobacteriaceae bacterium
+0.003891 3 0 137 1.51 6.378e-06 1643822 order Eggerthellales
+0.003891 3 0 137 1.51 6.531e-06 1643826 family Eggerthellaceae
+0.003891 3 0 116 1.48 4.094e-05 84108 genus Slackia
+0.003891 3 0 115 1.48 0.0001258 2685017 no rank unclassified Slackia
+0.003891 3 3 115 1.48 0.0001876 2049041 species Slackia sp.
+2.14 1650 0 36181 1.19 0.000728 1297 phylum Deinococcus-Thermus
+2.14 1650 0 36181 1.19 0.000728 188787 class Deinococci
+2.139 1649 0 36118 1.19 0.00297 68933 order Thermales
+2.139 1649 45 36118 1.19 0.00297 188786 family Thermaceae
+2.076 1601 47 34295 1.18 0.0087 65551 genus Meiothermus
+1.996 1539 1539 31059 1.19 0.08485 52022 species Meiothermus silvanus
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+0.003891 3 0 1421 1.15 0.001929 370471 no rank unclassified Meiothermus
+0.003891 3 3 1421 1.15 0.001929 1955249 species Meiothermus sp.
+0.002594 2 2 155 1.11 0.000442 2026184 species Meiothermus luteus
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+0.002594 2 0 31 2.55 4.384e-05 2619321 no rank unclassified Thermus
+0.002594 2 2 31 2.55 4.389e-05 275 species Thermus sp.
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+0.001297 1 0 45 1.04 1.518e-06 183710 family Deinococcaceae
+0.001297 1 0 45 1.04 1.539e-06 1298 genus Deinococcus
+0.001297 1 1 15 1 4.54e-05 1299 species Deinococcus radiodurans
+0.001297 1 0 135 1.2 2.574e-06 544448 phylum Tenericutes
+0.001297 1 0 105 1.19 1.774e-05 658142 no rank environmental samples
+0.001297 1 1 105 1.19 1.774e-05 658143 species uncultured Tenericutes bacterium
+0.001297 1 0 62 1.1 1.658e-07 1798711 clade Cyanobacteria/Melainabacteria group
+0.001297 1 0 44 1.11 1.26e-07 1117 phylum Cyanobacteria
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+0.001297 1 0 22 1 7.247e-07 1162 family Nostocaceae
+0.001297 1 0 21 1 1.096e-06 1177 genus Nostoc
+0.001297 1 0 21 1 2.211e-06 2593658 no rank unclassified Nostoc
+0.001297 1 1 21 1 2.211e-06 1180 species Nostoc sp.
+27.84 21467 203 474420 1.22 7.187e-05 1224 phylum Proteobacteria
+20.89 16110 163 355801 1.23 0.000158 1236 class Gammaproteobacteria
+16.35 12605 251 291935 1.24 0.0009731 91347 order Enterobacterales
+15.99 12333 874 277473 1.23 0.002339 543 family Enterobacteriaceae
+11.42 8807 5225 181744 1.28 0.02882 561 genus Escherichia
+3.332 2569 2569 56355 1.28 0.04647 562 species Escherichia coli
+1.207 931 0 42474 1.29 0.01777 2608889 no rank unclassified Escherichia
+1.207 931 931 42474 1.29 0.01777 1884818 species Escherichia sp.
+0.06484 50 50 1421 1.21 0.004025 564 species Escherichia fergusonii
+0.02983 23 23 2737 1.27 0.00324 208962 species Escherichia albertii
+0.01038 8 8 479 1.21 0.001072 1499973 species Escherichia marmotae
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+3.24 2498 107 50107 1.15 0.01863 590 genus Salmonella
+3.024 2332 2331 44253 1.15 0.02076 28901 species Salmonella enterica
+0.001297 1 1 273 2.46 0.242 59201 subspecies Salmonella enterica subsp. enterica
+0.07652 59 59 1747 1.1 0.003463 54736 species Salmonella bongori
+0.07911 61 11 2338 1.22 0.0001665 544 genus Citrobacter
+0.05058 39 18 1205 1.21 0.000168 1344959 species group Citrobacter freundii complex
+0.01038 8 8 309 1.19 0.0002776 1639133 species Citrobacter portucalensis
+0.009078 7 7 121 1.19 0.0001344 57706 species Citrobacter braakii
+0.006484 5 5 244 1.23 0.0001124 546 species Citrobacter freundii
+0.001297 1 1 55 1.36 0.0001072 67826 species Citrobacter sedlakii
+0.005188 4 4 193 1.24 0.0003364 67825 species Citrobacter rodentium
+0.005188 4 4 278 1.27 0.0001426 35703 species Citrobacter amalonaticus
+0.002594 2 0 105 1.28 5.203e-05 2644389 no rank unclassified Citrobacter
+0.002594 2 2 105 1.28 5.203e-05 1896336 species Citrobacter sp.
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+0.01038 8 8 136 1.12 8.981e-05 1134687 species Klebsiella michiganensis
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+0.001297 1 1 112 1.11 0.0001078 1463165 species Klebsiella quasipneumoniae
+0.03891 30 9 1475 1.19 7.42e-05 547 genus Enterobacter
+0.01945 15 3 961 1.18 8.153e-05 354276 species group Enterobacter cloacae complex
+0.009078 7 7 335 1.24 0.0006667 2494701 species Enterobacter chengduensis
+0.002594 2 2 168 1.17 4.423e-05 550 species Enterobacter cloacae
+0.001297 1 1 185 1.19 0.0001252 69218 species Enterobacter cancerogenus
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+0.001297 1 0 1 1 1.59e-06 92944 genus Ketogulonicigenium
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+0.001297 1 1 5 1 9.754e-06 1123067 species Rubellimicrobium mesophilum
+2.047 1578 0 35218 1.15 0.00153 2800060 order Hyphomonadales
+2.047 1578 1 35218 1.15 0.00153 69657 family Hyphomonadaceae
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+0.003891 3 0 123 1.26 2.435e-06 325217 no rank unclassified Mesorhizobium
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+0.001297 1 1 2 2 4.615e-06 714899 species Hoeflea halophila
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+0.001297 1 1 114 1.18 3.998e-06 1874826 species Novosphingobium sp.
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+13.28 10243 4 275110 1.13 0.0001243 976 phylum Bacteroidetes
+13.09 10095 2 268725 1.14 0.0004027 200643 class Bacteroidia
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+0.8637 666 0 14819 1.13 0.000196 414999 class Opitutae
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+0.02594 20 20 511 1 0.0002585 239935 species Akkermansia muciniphila
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+0.009078 7 7 37 1.03 2.88e-05 294750 subspecies Cryptococcus gattii VGII R265
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+0.005188 4 4 25 1.28 2.182e-05 367775 subspecies Cryptococcus gattii WM276
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+0.005188 4 0 89 1.27 3.581e-06 2605435 phylum Evosea
+0.005188 4 0 89 1.27 1.11e-05 555406 clade Archamoebae
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+0.9195 709 0 76191 1.29 0.0001871 2731360 kingdom Heunggongvirae
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diff -r 000000000000 -r d491c23394f9 test-data/krona.k2.int.tsv
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/krona.k2.int.tsv Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,73 @@
+24 Unclassified
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diff -r 000000000000 -r d491c23394f9 test-data/krona.k2.noint.tsv
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/krona.k2.noint.tsv Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,36 @@
+24 Unclassified
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diff -r 000000000000 -r d491c23394f9 test-data/out1.k1.11176.children.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out1.k1.11176.children.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,20 @@
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diff -r 000000000000 -r d491c23394f9 test-data/out1.k1.11176.fa
diff -r 000000000000 -r d491c23394f9 test-data/out1.k1.e10386.children.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out1.k1.e10386.children.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,252 @@
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+AGCTGTTGGATTTCAGACCGCATCATAGGG
+>C_II_XVIIIb-73/1
+CAGACGCGGAATGCTCAGCAGTCACTCAATACCTATTGTCGGATGCTGTGAGACCATTGC
+TTAGGTCGGAACAAGTGAACTCTATCATATCTCCCAACATAATCACATTTCCCGCCAATC
+TATATTACATGTCCAGGAAGAGTCTTAATC
+>C_II_XVIIIb-71/1
+GGGTTAACTCTGAGGCTCAGGGGAGAATGTGATGCAACTTATCAAAAGGATATCTCAATA
+TTAGATTCTCAAGTCATCGTGACCGGCAATCTCGTTATATCAACTGAGCTTGGAAATGTC
+AACAATTCAATAAGCAATGCCTTGGATAAG
+>C_II_XVIIIb-69/1
+CTTAAAGCTAGTTCACCTGTCTATCTAATTAGAAAAAACACGGGTAGAAGAGTCTGGAAC
+CTAACTAGCACATTCTGAACGCAATATGGGCTCCAAACCTTCTACCAGGATTCCAGTACC
+TCTGATGCTGATCATTCGGACTATGCTGAT
+>C_II_XVIIIb-67/1
+CTATCTCGGCATCTGTAGCGGTGGCCATCTTCACACTAATCTACTAGGTAGAAGAGAGAA
+CAGAGACTTTGGTGACTCGTCCTGGTCTCCAGGTGTCTCCCTTCTACCCGTATTTTTTTC
+TAATACCTCGGGCTCTGAGTGGATTGTTGG
+>C_II_XVIIIb-65/1
+ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA
+GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA
+TTGATGCTACTTCCCTGAGCCTGAGCATAC
+>C_II_XVIIIb-63/1
+GTATGATCCTAGGCCTACGTCAGAAAAGGATCGTGCAAGATTCGACTTAGCTATCTTCAA
+GAGTTATGAGCTTAATTTGGAGTCATATTCCACACTGGAGCTGATGAACATTCTTTCAAT
+CTCTAGCGGAAAGTTGATCGGCCAATCAGT
+>C_II_XVIIIb-61/1
+GCTGATGAACATTTTGACAATCCCTATCGGAACGTTGATCGGCCAATCAGTGGTTTCTTA
+TGATGAAGATCCCTCTATAAAGAATGATGCTATAATAGTGTATGACAACACACGAAATTG
+GATCAGTGAGGCCCAGAATTCAGATGTGGT
+>C_II_XVIIIb-59/1
+TACCACAAGAGTTCATCTGCCCTCGAATTTGAGACATGCATAGAGTATGACCCCGTTACC
+AATCTAAGCATGTTCTTAAAGGACAAGGCAATCGCACATCCGAAAGATAACTGGCTCGCC
+TCATTCAGGCGGAACCTCCTCTCTGAGGAC
+>C_II_XVIIIb-57/1
+CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG
+ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTC
+CTACCCGTGCTTTCTTTTGTGTGTTGGTTT
+>C_II_XVIIIb-55/1
+AAGTGATCTCCGGGCGATAGTCCGATCTCATCAAGTTTTAATTTCGGGCCCTGGAGACCC
+ATCTCCTTATGTGACACAAGGGGGTGAAATGACACTCAATAAACTCTCACAACCGGTACA
+GCACCCTTCAGAGCTAGTTAAATCTGCTAC
+>C_II_XVIIIb-53/1
+CACTCGGATACCCTCATTTGATATGAGTACTACTCACTACTGTTATACTCACAATGTTAT
+ACTATCTGGTTGTAGAGATCACTCACACTCACACCAATACTTAGCACTTGGTGTGCTTCG
+GGTATCTGCGACAGGGAGGGTATTCTTTTC
+>C_II_XVIIIb-51/1
+GATCCGATCTCGTGTGTTGTCATACACTATTATAGCATCATTCTTTATAGAGGTATCTTC
+ATCATAAGAGACCACTGATTGGCCGATCAACTTTCCGCTAGAGATTGAAAGAATGTTCAT
+CAGCTCCAGTGTGGAATATGACTCCAAATT
+>C_II_XVIIIb-49/1
+ATTTAGATCCATACAATGAGATGGAATCTTTGACAACCCTTGAGTACCTAAGAGATGACA
+GTGTGGCAGTATCATATTCACTTAAAGAGAAGGAGGTGAAAGTGAATGGGCGAATTTTTG
+CTAAGTTGACAAAGAAGCTAAGGAACTGCC
+>C_II_XVIIIb-47/1
+ATAACCTGTGGCTCTGCCCTGTCGGGACTAGAGCCTGCCATGTCCTACCCGTGCTTTCTT
+TTGTGTGTTGGTTTCCTTTATATCTCAATGCTTTTTTTATTTTTTCTTAATAAAGTGGCC
+AAAAACAGGACTCAGACTAATCATGTCAGT
+>C_II_XVIIIb-45/1
+GAGAAGATAGTTGATTGGTGTGTGATTGCCTGTAAGAGTCATTGTTACTGTAATATCCCT
+TTGCTGCATTACCTATGGTTTTCATGTAGAATTTTTGTTGAGCACGAGTTAAATAGAGTG
+AAGAGGTATCTGTAAATATTTCTTTGAGTT
+>C_II_XVIIIb-43/1
+CCAGATAGTATAACATTGTGAGGATAACAGTAGTGAGTAGTACTCATATCAAATGAGGGT
+ATCCGAGTGCAACCAGACCCTGTAGTAGGGGCCGGGATAAAATTCAAGTGTTCTTGATAT
+GCGGAAGGATAAAATGATGTGACATCACTG
+>C_II_XVIIIb-41/1
+ACTTAGGCATGATGGAAAATCGCGACGCCGGCGGCGCCAACATTTCATCCTTAAGTGATC
+TCCGGGCGGTAGCCCGATCTCATCCAGTTTTAATTTCGGGCCCTGGAGACCCATCTCCTT
+ATGTGACACAAGGGGGTGAAATGACACTCA
+>C_II_XVIIIb-39/1
+TCCTCAGGGAGGAGGTTTCGCCTGAATGAGGCGAGCCAGTTATCTTTCGGATGTGCGATT
+GCCTTGTCCTTTAAGAACATGCTTAGATTGGTAACGGGGTCATACTCTATGCATGGCTCA
+AATTCGAGGGCAGATAAACTCTTGTACTCT
+>C_II_XVIIIb-37/1
+GGCTGCATTGTTGGCACATGACATAACAGTGTTTTCACTAAGGTCACCTGATATTAGCAC
+TAATTTAGATGAGTTTTTGAGGACCTGACTGAGTATTGCTCCGTCTTTGAATATTCGTTT
+GCTATATATGAAGAATGTGTCTGACCTGAT
+>C_II_XVIIIb-35/1
+GCGCTAGGCCGAAGCTCGAATCTTAGGGCACCTTCTACCGATATGTTGTCTGTCTTCGAC
+GAATACGAGCAGCTCCTCGCTGCCCAGACCCGTCCTAACGGAACTCACGGAGGAGGAGAG
+AAAGGGAGCACTTTAAAAGTTGAAGTCCCA
+>C_II_XVIIIb-33/1
+TCCGAACCCAGCATATTCTGGAATATGGAAACAGTCACAACCATCAGCTGGTGCAACCCC
+TCATGTGCCCCAGTCAGGGCAGAACCAAGACAATACTCCTGCACCTGTGGATCATGTCCA
+GCTACCTGTCGACTTTGTGCAAATGATGAT
+>C_II_XVIIIb-31/1
+GCAGAAGTCAGGCGAATAGAAGAAGTGGGGGTGCTAAGTCCTAGTATTATGACCAACATC
+TTAACTAGGCCACCAGGCAATGGAGACTGGGCCAGCCTGTGCAACGACCCTTATTCCTTT
+AACTTTGAGACTGTTGCAAGCCCAAATATT
+>C_II_XVIIIb-29/1
+TTTCCATGCTTGACAAGCTGAGCAATAATTCGTCCAATGCTAAAAAGGGCCCAAGGTCAG
+GCCCCCAAGAAGGGCACCATCAACCTCCGGTCCCACAACAAGGGAACCAGCCGAGCCATG
+GAAGCAACCAGGAAAGACCGCAGCACCAGG
+>C_II_XVIIIb-27/1
+CACAGAGACAGATTAGCAGCCAGCTGAGCTAATAGACTTTGGTTAGACCCCGGAGGAATC
+TCAACGTCGCAATGCAGTAATGCTACAGACCTGTGGGGCACTACAGATGTGATATATCCC
+ACTGCTCTATCTGAAGTCAGGTCGCTTTCT
+>C_II_XVIIIb-25/1
+ACAAATTTCGGAAGATTGAAAGGAAGATTCAGAGTCACAATACAAGGTATGGAGAATTGT
+TCACAAAGCTGTGCACACATATTGAAAAGAAATTGCTAGGATCATCTCGATCTAATAATG
+TCCCACGGTCAGAAGAATTCAGTAGCATCC
+>C_II_XVIIIb-23/1
+TCACACTGCTGGAGTTTCGATTTTGGGTGTCATCTAAATTGATAGAACGCAGAGTAGAAA
+AGAATACCCTCCCTGTCGCAGATACCCGAAGCACACCAAGTGCTAAGTATTGGTGTGAGT
+GTGAGTGATCTCTACAACCAGATAGTATAA
+>C_II_XVIIIb-21/1
+TTCTCTGAACGTTCGACCCGTAGATTGCTGCTTAGTTTCTTATACCCGTCAGTTTTTTCT
+TGAGTTTTCGATCTGACAGGCTGTCAGAATTGACATACAGGCTGCTGCTGTATGTGCATC
+CAATTCTCATTTGCGGTCATGCTCTTGTAT
+>C_II_XVIIIb-19/1
+GGCACAGACGCGAACAGAGCTTGTCATGGACTATGGAAGGAGTCACAACCATCAGCTGGT
+GCAACCCCTCATGTGCCCCAGTCAGGGCAGAACCAAGACAATACTCCTGCACCTGTGGAT
+CATGTCCAGCTACCTGTCGACTTTGTGCAA
+>C_II_XVIIIb-17/1
+GAATTTGAATCTGTGAGGCCCAGAATTCAGATGTGGTCCGCTTATTCGAATATGCGGCAC
+TCGAGGTGCTCCTTGACTGTTCTTACCAACTCTACTATCTGAGAGTGAGAGGCCTAAACA
+ACATCGTCTTATACATGAGTGACCTATACA
+>C_II_XVIIIb-15/1
+TGAGCCGCGATCTTAAAAGCCGAGGATAAGTTCACGACTTTGCTCAGTTCTAGCCAAGAT
+GTGACAGATAGGATATATAAACAGGTGGCTCTTGAATCTCCGCTAGCGCTACTAAACACC
+GAATCTATAATTATGAATGCAATAACATCC
+>C_II_XVIIIb-13/1
+CCTCACAGTAGCGTCTTGTGAACGACATTCTATCCAGTCCCCTACCGAGGCTGATGAAGT
+TCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCCCT
+TTTGTGCAGAAAGTTTGGTGAGCACACTAA
+>C_II_XVIIIb-11/1
+TGTGCACGGTTTAATTGACGTCATCTTTTTCCCGTCTGTAGAGAGGTTATAAGGAGTAAA
+TAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGTAGATCACAGATCTAATGAC
+TGTGTCAATGTGGCTGGCAATTATCTGAGT
+>C_II_XVIIIb-9/1
+GACTAATCATGTCAGTGTCGTTAGACTGTGCCTACCCGGCAGCACGGGATCTGGGCTTGT
+GTTGATATTCAGTTTGACTCTTGGCATCGCGAAAGATATTCAGTGCCACATCATTCTTCC
+AGCCGTCCTATGGCTGACTCAATTGGCTGG
+>C_II_XVIIIb-7/1
+GCCATGGTGATTAAGCAGTTCCTAATCCTCTGAACAAGTATCGTACTAAGTAATCTTCCT
+TTGGGTTTGGTAGTGTGTGCTCGGGGCAAATCTCGCTAAGCGTAAATGCATCATACCTTG
+CTGGAGCAGTCAAATCTAGCTCTTGTATAA
+>C_II_XVIIIb-5/1
+TAGAAACTATTATAGCATCATTGTTTTTATAGGTATCTTCATCATAAGAAACCACTGATT
+GGCCGATCAACTTTCCGCTAGAGATTGAAAGAATGTTCATCAGCTCCAGTGTGGAATATG
+ACTCCAAATTAAGCTCATAACTCTTGAAGA
+>C_II_XVIIIb-3/1
+CAGATAAAAGAGACGACCCTAACTTATCGCCTCTTGATTGAGTTTTTAGAATCAAATGAT
+TTTGATCCATACAAGGAGATGGAATACTTGACAACCCTTGAGTACCTAAGAGATGACAGT
+GTGGCAGTATCATATTCACTTAAAGAGAAG
+>C_II_XVIIIb-1/1
+CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACG
+TTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATAT
+GCTATCTTGAATGACCCCATTTCCTTGGAA
+>HQ630064-957/1
+CAAAGCAAATTTTGTAGCTTAAGATAAAGGGGGCCCTAAAGAAGAAGCAACATCGTCTCG
+GGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTTTACTACCAGTGTTTGGTGTGGTG
+TGGTAAGGGGAAATGAGACGAGAATTTTTC
+>HQ630064-665/1
+CCCCGGGAGCTTTTTAGCGCGGCGTCACGTATAAATGCACAGAAGCTTCGTCAGTAACGA
+AGCGCCTCTGCCAGAGTTATTAACATTAGGACTCGAGAGAGTCTCGAGAAGAGACTTCCC
+AAAGAGAGTGCCGCTTTGATCTCCAGATCA
+>HQ630064-403/1
+TGTCTACCTGTCTGTCAAATTGTGACTACCACGTACCAACTCCTCCCCAAAGTTCTACCC
+TTTTCCTTAAAAACACATTTAAAATGTCAAAATACCGATCCTTATATTTGTGTGTTATGT
+TTTCTTTTGCCTTCTAGGATTGATTGAATT
+>HQ630064-343/1
+ACGAAAGAAAGAAAGGAAAAGGCCTCAAAGTTAATTTTGTAGCTTAAAAAAGAGGGGGCC
+CTAAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGAT
+TTTACTACCAGTGTTTGGTGTGGTGTGGTA
+>HQ630064-307/1
+TCGTGTGTTTGCTCGCGTGCTTTGGATGTTGGGATGAGGCCTTGGTGTTGCCAGGCTCCG
+GTTTCTTAAAGGTTATCCGAGGGGGAAGTTCCACGTGTTCTTTTAGCTTTTCTCCATATT
+CCGGTCTACGGGTACAAATGTCCTCTGGAT
+>HQ630064-241/1
+CGTGACCTCATTTACAAGATGTCGGTGGCACCCAGCTACGTCACGTTCGCACCGAGGGTC
+CAACATTTTCCTAAAATGGCAAAGCGGGACTTGGGTCCGTGGGTAAATTTTCTAATTTTT
+TCCCACGGTCTGTCGCAAGAGCGTATTCTC
+>HQ630064-217/1
+AACTTTGGGGAGGAATTGGTACGTGGTAGACACAATTTGACAGACAGGTAGACAGACAAC
+GAATTACAAGCGGCCTAGGGTAATAGCGCTGAGCCCATGATGTGTCCGTGCATATGAGAC
+GACTAATAAGGTAGTCACGTAAACCCCCGT
+>HQ630064-199/1
+AGAAGCAGTATTGTGATCTTTCTCTCTTTCGCATGAATCGCTAGGAAGAGGAATTTTGGA
+AGCATCTGGATACCTTACAGGAGATTTAGAAATCTCGGTAGTTATGACATGTTCATCAGA
+TGAGGAAGATAGCAAGCGTGACGGTGTTTT
+>HQ630064-111/1
+GTGTCTCCGAGTTGTGCTCTCTCGAAACTCACTTTGCCCTCACTTGTTGGCTTTATGGAG
+GTCGTAATGATCATCGATGGAGTACTTATATAATATTGTGCTCTGCCGGCCATCTCTCCG
+TGGTCGCAGAACTCCAACACCTTGTTGGCG
+>HQ630064-105/1
+AGTTTAAACTTTGTCCGCGCGCCAATCTTGAAGTGATATTAGGACATAGTCAACCAACCG
+ACGTACGTTGAACCATTTGCGGGCAGCGCTGAGGGAAGACGAGATGTATGGACAACACAA
+CGACCGGAGAAGAGGGCGTAAAGAACATCA
+>HQ630064-11/1
+GAAAGAAAGAAAGGAAAAGGCCTCAAAGCAAATTTTGTAGCTTAAAAAAGAGGGGGCCCT
+AAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTT
+TACTACCAGTGTTTGGTGTGGTGTGGTAAG
+>HQ630064-3/1
+AGGACTGTCGCTCATATCTTGCGTACTGTGTCTTATTTACTCGTGTTGTCTTTCCGCAGG
+GAATGCGCGGTTCGAGTAGGCCGTGGTTTGCGGCCGTTCTCGGATAAGCACAAAATATCG
+CCCTACTCGTGTGTCAAAAAGGAAAAGTCT
diff -r 000000000000 -r d491c23394f9 test-data/out1.k2.11176.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out1.k2.11176.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,28 @@
+>C_II_XVIIIb-65/1
+ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA
+GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA
+TTGATGCTACTTCCCTGAGCCTGAGCATAC
+>C_II_XVIIIb-57/1
+CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG
+ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTC
+CTACCCGTGCTTTCTTTTGTGTGTTGGTTT
+>C_II_XVIIIb-49/1
+ATTTAGATCCATACAATGAGATGGAATCTTTGACAACCCTTGAGTACCTAAGAGATGACA
+GTGTGGCAGTATCATATTCACTTAAAGAGAAGGAGGTGAAAGTGAATGGGCGAATTTTTG
+CTAAGTTGACAAAGAAGCTAAGGAACTGCC
+>C_II_XVIIIb-45/1
+GAGAAGATAGTTGATTGGTGTGTGATTGCCTGTAAGAGTCATTGTTACTGTAATATCCCT
+TTGCTGCATTACCTATGGTTTTCATGTAGAATTTTTGTTGAGCACGAGTTAAATAGAGTG
+AAGAGGTATCTGTAAATATTTCTTTGAGTT
+>C_II_XVIIIb-17/1
+GAATTTGAATCTGTGAGGCCCAGAATTCAGATGTGGTCCGCTTATTCGAATATGCGGCAC
+TCGAGGTGCTCCTTGACTGTTCTTACCAACTCTACTATCTGAGAGTGAGAGGCCTAAACA
+ACATCGTCTTATACATGAGTGACCTATACA
+>C_II_XVIIIb-9/1
+GACTAATCATGTCAGTGTCGTTAGACTGTGCCTACCCGGCAGCACGGGATCTGGGCTTGT
+GTTGATATTCAGTTTGACTCTTGGCATCGCGAAAGATATTCAGTGCCACATCATTCTTCC
+AGCCGTCCTATGGCTGACTCAATTGGCTGG
+>C_II_XVIIIb-1/1
+CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACG
+TTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATAT
+GCTATCTTGAATGACCCCATTTCCTTGGAA
diff -r 000000000000 -r d491c23394f9 test-data/out1.k2.11176.fq
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out1.k2.11176.fq Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,28 @@
+@C_II_XVIIIb-65/1
+ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCAGCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCATTGATGCTACTTCCCTGAGCCTGAGCATAC
++
+G9;G*GGG3GGG*GGF+G#GFG*DGGGGFGGGGGG77FGGG,GGGGFGCGGFG>GGGGCFGGAGGG7GGGGGGGGGGGEGGEGGF:FGFF*;GCGG#?GGEGFEGC#G#GG6EFE#GG58#GGGFGGGGCGCGFBCGGGGGFGDG@FGGGGGCFGGGCFGFD8CGDFGDGGGACDGFGFGGGG:FGG>GGGG>GGGCFGG4GGCBGGGGFFGEGGGGGGGGGGGGGGGGGGGG:GGGGGG
+@C_II_XVIIIb-1/1
+CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACGTTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATATGCTATCTTGAATGACCCCATTTCCTTGGAA
++
+GFFGG@G#G#GG#GGGC;EGGGGGGE#FG#+GGGGG*GGGGDGGGFCFGG8CCGG1FGGEGGGFGGGGGF*GGGCGGFGGGGG/GF:EGGGGFF@GGG*GE+DGGGFGGCGGGGGGGG@GDGGGGG,GF,CG4FFGGGGFGGGGCFGGGG
diff -r 000000000000 -r d491c23394f9 test-data/out1.k2.11176.max2.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out1.k2.11176.max2.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,8 @@
+>C_II_XVIIIb-65/1
+ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA
+GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA
+TTGATGCTACTTCCCTGAGCCTGAGCATAC
+>C_II_XVIIIb-57/1
+CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG
+ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTC
+CTACCCGTGCTTTCTTTTGTGTGTTGGTTT
diff -r 000000000000 -r d491c23394f9 test-data/out1.k2.11176.parents.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out1.k2.11176.parents.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,76 @@
+>C_II_XVIIIb-99/1
+ATCCAATCACCCATTAGTCTGCTCTATTAAGTGTTCGCTGACGCTAGCAGACTATGCCCG
+GAACAGAAGCTGGTCACCTTTGACAGGGGGTAGGAAGATACTAGGCGTATCTAATCCTGA
+CACCATAGAACTTGTGGAAGGAGAGATTCT
+>C_II_XVIIIb-97/1
+TGAGTCATGCATAGAGTACGACCCCATTACCAATCTAAGCATGTTCTTAAAGGACAAGGC
+AATCGCACATCCGAAAGATAACTGGCTCGCCTCATTCAGGCGGAACCTCCTCTCTGAGGA
+CCAAAAGAAACAGATAAAAGAGGCGACCTC
+>C_II_XVIIIb-93/1
+GTCGCAAGTTGATCTGATAGCCTTTGGTTCGACCCCGGAGGAATCTCAATGTCGCAATGC
+AGTAATGCTACAGACCTGTGGGGCACTACAGATGTGATATATCCCACTGCTCTATCTGAA
+GTCAGGTCGCTTTCTTCTGCATTCTCTCTC
+>C_II_XVIIIb-87/1
+TTTACCAAGAGTCCCAAATCATGATATATATATTGTCAGTGCTAGGGGGGGCATTGAGGG
+ATTATGCCAGAAGCTATGGACAATGATCTCAATTGCTACAATCCAACTTGCTGCAGCAAG
+ATCACACTGTCGTGTTGCCTGCATGGTACA
+>C_II_XVIIIb-85/1
+TAGGTTGAACAAGCTGCAAGGGCACCCAGACGTCGGGGATGGAGAGACCCAATTCCTAGA
+TTTTATGAGAGCAGTGGCGAACAGCGTGCGAGAAGCGTCAAATCCCGCACAAAACGTCAC
+CCCTCTAGAGCCTCCCCCAACTCCTGGGCC
+>C_II_XVIIIb-75/1
+CAATCTGGATGATAACGGACTAGCGCCCGGAGATGACTTAAGGATGAAATGTTGGCGCAA
+CCGGGGTCCAGAATTTTCATCATGCCTAAGTTGGCTTCCATGATCGCAACAGATGTTTTA
+AGCTGTTGGATTTCAGACCGCATCATAGGG
+>C_II_XVIIIb-65/1
+ACCCCCACCTGTTGAGTAGGAATATCCATGCAGCCAATTTCTTCAGACACTCGTTGGGCA
+GCAGCCGCCAGACCTCTCCTTGCTGCCGGAGTCAGTTTTAGTTCAGCAGCCATGTCTTCA
+TTGATGCTACTTCCCTGAGCCTGAGCATAC
+>C_II_XVIIIb-57/1
+CGGGAGCCCAGTTAATTTCCAGTAATAGAGCAACTTGTGCTTGACCAATGGAGAGGATAG
+ATGTGACTCTGGTAGGATAATCTGGTGCTCTGCCCTTTCGGGACCAGAGCCTGCCATGTC
+CTACCCGTGCTTTCTTTTGTGTGTTGGTTT
+>C_II_XVIIIb-49/1
+ATTTAGATCCATACAATGAGATGGAATCTTTGACAACCCTTGAGTACCTAAGAGATGACA
+GTGTGGCAGTATCATATTCACTTAAAGAGAAGGAGGTGAAAGTGAATGGGCGAATTTTTG
+CTAAGTTGACAAAGAAGCTAAGGAACTGCC
+>C_II_XVIIIb-45/1
+GAGAAGATAGTTGATTGGTGTGTGATTGCCTGTAAGAGTCATTGTTACTGTAATATCCCT
+TTGCTGCATTACCTATGGTTTTCATGTAGAATTTTTGTTGAGCACGAGTTAAATAGAGTG
+AAGAGGTATCTGTAAATATTTCTTTGAGTT
+>C_II_XVIIIb-43/1
+CCAGATAGTATAACATTGTGAGGATAACAGTAGTGAGTAGTACTCATATCAAATGAGGGT
+ATCCGAGTGCAACCAGACCCTGTAGTAGGGGCCGGGATAAAATTCAAGTGTTCTTGATAT
+GCGGAAGGATAAAATGATGTGACATCACTG
+>C_II_XVIIIb-33/1
+TCCGAACCCAGCATATTCTGGAATATGGAAACAGTCACAACCATCAGCTGGTGCAACCCC
+TCATGTGCCCCAGTCAGGGCAGAACCAAGACAATACTCCTGCACCTGTGGATCATGTCCA
+GCTACCTGTCGACTTTGTGCAAATGATGAT
+>C_II_XVIIIb-29/1
+TTTCCATGCTTGACAAGCTGAGCAATAATTCGTCCAATGCTAAAAAGGGCCCAAGGTCAG
+GCCCCCAAGAAGGGCACCATCAACCTCCGGTCCCACAACAAGGGAACCAGCCGAGCCATG
+GAAGCAACCAGGAAAGACCGCAGCACCAGG
+>C_II_XVIIIb-19/1
+GGCACAGACGCGAACAGAGCTTGTCATGGACTATGGAAGGAGTCACAACCATCAGCTGGT
+GCAACCCCTCATGTGCCCCAGTCAGGGCAGAACCAAGACAATACTCCTGCACCTGTGGAT
+CATGTCCAGCTACCTGTCGACTTTGTGCAA
+>C_II_XVIIIb-17/1
+GAATTTGAATCTGTGAGGCCCAGAATTCAGATGTGGTCCGCTTATTCGAATATGCGGCAC
+TCGAGGTGCTCCTTGACTGTTCTTACCAACTCTACTATCTGAGAGTGAGAGGCCTAAACA
+ACATCGTCTTATACATGAGTGACCTATACA
+>C_II_XVIIIb-9/1
+GACTAATCATGTCAGTGTCGTTAGACTGTGCCTACCCGGCAGCACGGGATCTGGGCTTGT
+GTTGATATTCAGTTTGACTCTTGGCATCGCGAAAGATATTCAGTGCCACATCATTCTTCC
+AGCCGTCCTATGGCTGACTCAATTGGCTGG
+>C_II_XVIIIb-5/1
+TAGAAACTATTATAGCATCATTGTTTTTATAGGTATCTTCATCATAAGAAACCACTGATT
+GGCCGATCAACTTTCCGCTAGAGATTGAAAGAATGTTCATCAGCTCCAGTGTGGAATATG
+ACTCCAAATTAAGCTCATAACTCTTGAAGA
+>C_II_XVIIIb-3/1
+CAGATAAAAGAGACGACCCTAACTTATCGCCTCTTGATTGAGTTTTTAGAATCAAATGAT
+TTTGATCCATACAAGGAGATGGAATACTTGACAACCCTTGAGTACCTAAGAGATGACAGT
+GTGGCAGTATCATATTCACTTAAAGAGAAG
+>C_II_XVIIIb-1/1
+CTTGCTCATTGGCTCATGATTGCGGTTTGTGGAAACTCTCTCTTTGCAGTCGGTGATACG
+TTTCTTATTGCTGTTGAAGGACAGTTGACTCATTGCCAACATACTCTTAGTCAAGGATAT
+GCTATCTTGAATGACCCCATTTCCTTGGAA
diff -r 000000000000 -r d491c23394f9 test-data/out1.k2.exclude_both.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out1.k2.exclude_both.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,176 @@
+>C_II_XVIIIb-101/1
+AGTGACATAGTAATGGGGGAGAGGAGGCGCATTACAGTCTTAGGAACGCAACTTACTTCC
+TGAAGGGATTGTACTTAGCAATGGTATGTCTCTTCTCTATCTTAGTAGAGGTGACTTCAT
+GATCAGCGGTCACTGCGACAGCGCGCTGAG
+>C_II_XVIIIb-95/1
+GTCATATTCCACACTGGAGCTCATGAAAATTCTTTCAATCTCTAGCGGAAAGTTGATCGG
+CCAATCAGTGGTTTCTTATGATGAAGATACCTCTATAAAGAATGATGCTATAATAGTGTA
+TGACAACACACGAAATTGGATCAGTGAGGC
+>C_II_XVIIIb-91/1
+CTTCGCCTGCCTTCCTGCATTACTATCTAACTTGGTAATAGTCTATCTTGATTGCTTATA
+GCTAGTTCACCTGTCTATCTAATTAGAAAAAACACGGGTAGAAGAGTCTGGAACCTAACT
+AGCACATTCTGAACGCAATATGGGCTCCAA
+>C_II_XVIIIb-89/1
+GGCTATTGCATGTCGGCCTGATATGGCAGTGGAGAAGGACACTGTCCGTGCATTAATCAC
+CTCTCGCCCAATGCATCCAAGCTCCTCAGCTAAGCTCCTGAGCAAGCTGGATGCAGCCAG
+GTCGATTGAAGAGATCAGGAAGATCAAACG
+>C_II_XVIIIb-83/1
+AGGTAGTTTCCCTTGGCAAGAATCAGCAAGATGCCCTAACTCATGCGTCACTGGAGTCTA
+TACTGATCCGTATCCCTTAGTCTTCAATCGGAATCATACCCTACGAGGGGTATTCGGGAC
+AATGCTTGATGATGGACAGGCAAGACTCAA
+>C_II_XVIIIb-81/1
+GGCCGCCGGCCCACTGAGTGGGGCCGCCTTCTCGGGTGCGGACGGCTGTTTGTCTGGTCT
+GGCTTGTTGGTCGGGGGCGTCCTGGCCGGCATTTGATTGGACACTCCCGTGCTTCTCCCA
+TGCAGTGCTCAGAGCCTTGGTCTTGCCTTG
+>C_II_XVIIIb-79/1
+GCTTGTAAAGCATGGACAGAAGATAGTTGCTTGCTCCGGTATTGAGCTGTATGTCGCCGG
+CCTCGCCTGCAGCCTGGGTGGGAGAGGACTCGGTGGATGTGGCCGGCGGGTCACTGTGTT
+GGGCCGCCTGCTCGGGTGCGGACGGCTGTT
+>C_II_XVIIIb-77/1
+TGCTAGGAAGATGAAAGCACGTAACCTTCTCATCTCCACTGTCACACTTTGTGCACCCTC
+CACTGACACTGAGAATCTCTCCTTCCACAAGTTCTATGGTGTCAGGATTAGATACGCCTA
+GTATCTTCCTACCCCCTGTCAAAGGTGACC
+>C_II_XVIIIb-73/1
+CAGACGCGGAATGCTCAGCAGTCACTCAATACCTATTGTCGGATGCTGTGAGACCATTGC
+TTAGGTCGGAACAAGTGAACTCTATCATATCTCCCAACATAATCACATTTCCCGCCAATC
+TATATTACATGTCCAGGAAGAGTCTTAATC
+>C_II_XVIIIb-71/1
+GGGTTAACTCTGAGGCTCAGGGGAGAATGTGATGCAACTTATCAAAAGGATATCTCAATA
+TTAGATTCTCAAGTCATCGTGACCGGCAATCTCGTTATATCAACTGAGCTTGGAAATGTC
+AACAATTCAATAAGCAATGCCTTGGATAAG
+>C_II_XVIIIb-69/1
+CTTAAAGCTAGTTCACCTGTCTATCTAATTAGAAAAAACACGGGTAGAAGAGTCTGGAAC
+CTAACTAGCACATTCTGAACGCAATATGGGCTCCAAACCTTCTACCAGGATTCCAGTACC
+TCTGATGCTGATCATTCGGACTATGCTGAT
+>C_II_XVIIIb-67/1
+CTATCTCGGCATCTGTAGCGGTGGCCATCTTCACACTAATCTACTAGGTAGAAGAGAGAA
+CAGAGACTTTGGTGACTCGTCCTGGTCTCCAGGTGTCTCCCTTCTACCCGTATTTTTTTC
+TAATACCTCGGGCTCTGAGTGGATTGTTGG
+>C_II_XVIIIb-63/1
+GTATGATCCTAGGCCTACGTCAGAAAAGGATCGTGCAAGATTCGACTTAGCTATCTTCAA
+GAGTTATGAGCTTAATTTGGAGTCATATTCCACACTGGAGCTGATGAACATTCTTTCAAT
+CTCTAGCGGAAAGTTGATCGGCCAATCAGT
+>C_II_XVIIIb-61/1
+GCTGATGAACATTTTGACAATCCCTATCGGAACGTTGATCGGCCAATCAGTGGTTTCTTA
+TGATGAAGATCCCTCTATAAAGAATGATGCTATAATAGTGTATGACAACACACGAAATTG
+GATCAGTGAGGCCCAGAATTCAGATGTGGT
+>C_II_XVIIIb-59/1
+TACCACAAGAGTTCATCTGCCCTCGAATTTGAGACATGCATAGAGTATGACCCCGTTACC
+AATCTAAGCATGTTCTTAAAGGACAAGGCAATCGCACATCCGAAAGATAACTGGCTCGCC
+TCATTCAGGCGGAACCTCCTCTCTGAGGAC
+>C_II_XVIIIb-55/1
+AAGTGATCTCCGGGCGATAGTCCGATCTCATCAAGTTTTAATTTCGGGCCCTGGAGACCC
+ATCTCCTTATGTGACACAAGGGGGTGAAATGACACTCAATAAACTCTCACAACCGGTACA
+GCACCCTTCAGAGCTAGTTAAATCTGCTAC
+>C_II_XVIIIb-53/1
+CACTCGGATACCCTCATTTGATATGAGTACTACTCACTACTGTTATACTCACAATGTTAT
+ACTATCTGGTTGTAGAGATCACTCACACTCACACCAATACTTAGCACTTGGTGTGCTTCG
+GGTATCTGCGACAGGGAGGGTATTCTTTTC
+>C_II_XVIIIb-51/1
+GATCCGATCTCGTGTGTTGTCATACACTATTATAGCATCATTCTTTATAGAGGTATCTTC
+ATCATAAGAGACCACTGATTGGCCGATCAACTTTCCGCTAGAGATTGAAAGAATGTTCAT
+CAGCTCCAGTGTGGAATATGACTCCAAATT
+>C_II_XVIIIb-47/1
+ATAACCTGTGGCTCTGCCCTGTCGGGACTAGAGCCTGCCATGTCCTACCCGTGCTTTCTT
+TTGTGTGTTGGTTTCCTTTATATCTCAATGCTTTTTTTATTTTTTCTTAATAAAGTGGCC
+AAAAACAGGACTCAGACTAATCATGTCAGT
+>C_II_XVIIIb-41/1
+ACTTAGGCATGATGGAAAATCGCGACGCCGGCGGCGCCAACATTTCATCCTTAAGTGATC
+TCCGGGCGGTAGCCCGATCTCATCCAGTTTTAATTTCGGGCCCTGGAGACCCATCTCCTT
+ATGTGACACAAGGGGGTGAAATGACACTCA
+>C_II_XVIIIb-39/1
+TCCTCAGGGAGGAGGTTTCGCCTGAATGAGGCGAGCCAGTTATCTTTCGGATGTGCGATT
+GCCTTGTCCTTTAAGAACATGCTTAGATTGGTAACGGGGTCATACTCTATGCATGGCTCA
+AATTCGAGGGCAGATAAACTCTTGTACTCT
+>C_II_XVIIIb-37/1
+GGCTGCATTGTTGGCACATGACATAACAGTGTTTTCACTAAGGTCACCTGATATTAGCAC
+TAATTTAGATGAGTTTTTGAGGACCTGACTGAGTATTGCTCCGTCTTTGAATATTCGTTT
+GCTATATATGAAGAATGTGTCTGACCTGAT
+>C_II_XVIIIb-35/1
+GCGCTAGGCCGAAGCTCGAATCTTAGGGCACCTTCTACCGATATGTTGTCTGTCTTCGAC
+GAATACGAGCAGCTCCTCGCTGCCCAGACCCGTCCTAACGGAACTCACGGAGGAGGAGAG
+AAAGGGAGCACTTTAAAAGTTGAAGTCCCA
+>C_II_XVIIIb-31/1
+GCAGAAGTCAGGCGAATAGAAGAAGTGGGGGTGCTAAGTCCTAGTATTATGACCAACATC
+TTAACTAGGCCACCAGGCAATGGAGACTGGGCCAGCCTGTGCAACGACCCTTATTCCTTT
+AACTTTGAGACTGTTGCAAGCCCAAATATT
+>C_II_XVIIIb-27/1
+CACAGAGACAGATTAGCAGCCAGCTGAGCTAATAGACTTTGGTTAGACCCCGGAGGAATC
+TCAACGTCGCAATGCAGTAATGCTACAGACCTGTGGGGCACTACAGATGTGATATATCCC
+ACTGCTCTATCTGAAGTCAGGTCGCTTTCT
+>C_II_XVIIIb-25/1
+ACAAATTTCGGAAGATTGAAAGGAAGATTCAGAGTCACAATACAAGGTATGGAGAATTGT
+TCACAAAGCTGTGCACACATATTGAAAAGAAATTGCTAGGATCATCTCGATCTAATAATG
+TCCCACGGTCAGAAGAATTCAGTAGCATCC
+>C_II_XVIIIb-23/1
+TCACACTGCTGGAGTTTCGATTTTGGGTGTCATCTAAATTGATAGAACGCAGAGTAGAAA
+AGAATACCCTCCCTGTCGCAGATACCCGAAGCACACCAAGTGCTAAGTATTGGTGTGAGT
+GTGAGTGATCTCTACAACCAGATAGTATAA
+>C_II_XVIIIb-21/1
+TTCTCTGAACGTTCGACCCGTAGATTGCTGCTTAGTTTCTTATACCCGTCAGTTTTTTCT
+TGAGTTTTCGATCTGACAGGCTGTCAGAATTGACATACAGGCTGCTGCTGTATGTGCATC
+CAATTCTCATTTGCGGTCATGCTCTTGTAT
+>C_II_XVIIIb-15/1
+TGAGCCGCGATCTTAAAAGCCGAGGATAAGTTCACGACTTTGCTCAGTTCTAGCCAAGAT
+GTGACAGATAGGATATATAAACAGGTGGCTCTTGAATCTCCGCTAGCGCTACTAAACACC
+GAATCTATAATTATGAATGCAATAACATCC
+>C_II_XVIIIb-13/1
+CCTCACAGTAGCGTCTTGTGAACGACATTCTATCCAGTCCCCTACCGAGGCTGATGAAGT
+TCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCCCT
+TTTGTGCAGAAAGTTTGGTGAGCACACTAA
+>C_II_XVIIIb-11/1
+TGTGCACGGTTTAATTGACGTCATCTTTTTCCCGTCTGTAGAGAGGTTATAAGGAGTAAA
+TAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGTAGATCACAGATCTAATGAC
+TGTGTCAATGTGGCTGGCAATTATCTGAGT
+>C_II_XVIIIb-7/1
+GCCATGGTGATTAAGCAGTTCCTAATCCTCTGAACAAGTATCGTACTAAGTAATCTTCCT
+TTGGGTTTGGTAGTGTGTGCTCGGGGCAAATCTCGCTAAGCGTAAATGCATCATACCTTG
+CTGGAGCAGTCAAATCTAGCTCTTGTATAA
+>HQ630064-957/1
+CAAAGCAAATTTTGTAGCTTAAGATAAAGGGGGCCCTAAAGAAGAAGCAACATCGTCTCG
+GGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTTTACTACCAGTGTTTGGTGTGGTG
+TGGTAAGGGGAAATGAGACGAGAATTTTTC
+>HQ630064-665/1
+CCCCGGGAGCTTTTTAGCGCGGCGTCACGTATAAATGCACAGAAGCTTCGTCAGTAACGA
+AGCGCCTCTGCCAGAGTTATTAACATTAGGACTCGAGAGAGTCTCGAGAAGAGACTTCCC
+AAAGAGAGTGCCGCTTTGATCTCCAGATCA
+>HQ630064-403/1
+TGTCTACCTGTCTGTCAAATTGTGACTACCACGTACCAACTCCTCCCCAAAGTTCTACCC
+TTTTCCTTAAAAACACATTTAAAATGTCAAAATACCGATCCTTATATTTGTGTGTTATGT
+TTTCTTTTGCCTTCTAGGATTGATTGAATT
+>HQ630064-343/1
+ACGAAAGAAAGAAAGGAAAAGGCCTCAAAGTTAATTTTGTAGCTTAAAAAAGAGGGGGCC
+CTAAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGAT
+TTTACTACCAGTGTTTGGTGTGGTGTGGTA
+>HQ630064-307/1
+TCGTGTGTTTGCTCGCGTGCTTTGGATGTTGGGATGAGGCCTTGGTGTTGCCAGGCTCCG
+GTTTCTTAAAGGTTATCCGAGGGGGAAGTTCCACGTGTTCTTTTAGCTTTTCTCCATATT
+CCGGTCTACGGGTACAAATGTCCTCTGGAT
+>HQ630064-241/1
+CGTGACCTCATTTACAAGATGTCGGTGGCACCCAGCTACGTCACGTTCGCACCGAGGGTC
+CAACATTTTCCTAAAATGGCAAAGCGGGACTTGGGTCCGTGGGTAAATTTTCTAATTTTT
+TCCCACGGTCTGTCGCAAGAGCGTATTCTC
+>HQ630064-217/1
+AACTTTGGGGAGGAATTGGTACGTGGTAGACACAATTTGACAGACAGGTAGACAGACAAC
+GAATTACAAGCGGCCTAGGGTAATAGCGCTGAGCCCATGATGTGTCCGTGCATATGAGAC
+GACTAATAAGGTAGTCACGTAAACCCCCGT
+>HQ630064-199/1
+AGAAGCAGTATTGTGATCTTTCTCTCTTTCGCATGAATCGCTAGGAAGAGGAATTTTGGA
+AGCATCTGGATACCTTACAGGAGATTTAGAAATCTCGGTAGTTATGACATGTTCATCAGA
+TGAGGAAGATAGCAAGCGTGACGGTGTTTT
+>HQ630064-111/1
+GTGTCTCCGAGTTGTGCTCTCTCGAAACTCACTTTGCCCTCACTTGTTGGCTTTATGGAG
+GTCGTAATGATCATCGATGGAGTACTTATATAATATTGTGCTCTGCCGGCCATCTCTCCG
+TGGTCGCAGAACTCCAACACCTTGTTGGCG
+>HQ630064-105/1
+AGTTTAAACTTTGTCCGCGCGCCAATCTTGAAGTGATATTAGGACATAGTCAACCAACCG
+ACGTACGTTGAACCATTTGCGGGCAGCGCTGAGGGAAGACGAGATGTATGGACAACACAA
+CGACCGGAGAAGAGGGCGTAAAGAACATCA
+>HQ630064-11/1
+GAAAGAAAGAAAGGAAAAGGCCTCAAAGCAAATTTTGTAGCTTAAAAAAGAGGGGGCCCT
+AAAGAAGAAGCAACATCGTCTCGGGCTGTGTTTCCGACGTTGGGGTGCATTATGCGATTT
+TACTACCAGTGTTTGGTGTGGTGTGGTAAG
+>HQ630064-3/1
+AGGACTGTCGCTCATATCTTGCGTACTGTGTCTTATTTACTCGTGTTGTCTTTCCGCAGG
+GAATGCGCGGTTCGAGTAGGCCGTGGTTTGCGGCCGTTCTCGGATAAGCACAAAATATCG
+CCCTACTCGTGTGTCAAAAAGGAAAAGTCT
diff -r 000000000000 -r d491c23394f9 test-data/out2.k1.11176.children.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out2.k1.11176.children.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,20 @@
+>C_II_XVIIIb-87/2
+AGAAGTTGTCACAAACTTTGTGAAGCTAACTTATCACCATATCCGGAGAATCATCTGACC
+TTACCTCTCTCGATACGGCTATTACTTGAATGTCACCTTGTACCATGCAGGCAAAACGAC
+AGTGTGATCTTGCTGCAGCAAGTTGGATTG
+>C_II_XVIIIb-53/2
+CTCTGAGACTTTAGTGCCCAGAACGTCACAACCTAAAGGAGTTGCACTCACACTGCAGGA
+CTTCCGACTTTGGGTGTCATCTAAGTTGATAGAACGCAGAGTAGAAAAGAATACCCTCCC
+TGTCGCAGATACCCGAAGCACACCAAGTGC
+>C_II_XVIIIb-37/2
+GATAGGTAAGGTCTGATGATTCTGCGGATCTGGTGTTAACTCAGCTGCACCAAGCTAGGG
+ATAACTTCTTTAAGGAATTAATTCATGTCAATCATCTGATTGGTCATAACTTGAAAGATC
+GTGAAACCATCAGGTCAGACACATTCTTCA
+>C_II_XVIIIb-25/2
+CAAAGACGTGGGGCATCTTATGAACTAACGTTACTAGCTTGGCGACTGCGGATCTTGTTC
+TTGCTGCTACAATCAGATGCCTTTGGACCTGTTTTATATGGAGCCATGCAAACTTGGCTC
+TGGACCACTTTGAGGGAAACCAGAATGCCG
+>C_II_XVIIIb-23/2
+ATGACCAGCATTATATCCGAGGGCTAGGCCGAGAACTCATAGTAAACGACACCAGTGATG
+TCACATCATTTTATCCTTCCGCATATCAAGAACACTTGAATTTTATCCCGGCGCCTTCTA
+CAGGGTCTGGTTGCACTCGGATACCCTCAT
diff -r 000000000000 -r d491c23394f9 test-data/out2.k1.11176.fa
diff -r 000000000000 -r d491c23394f9 test-data/out2.k1.e10386.children.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out2.k1.e10386.children.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,252 @@
+>C_II_XVIIIb-101/2
+GGGACCGCGTGCTAGCCCATAGCAAATGCCTCTCCACAGGTTGCTAAGATACTCTGGAGC
+CAAACCGCGCACCTGCGGAGCGTGAAAGTCATCATTCAAGCTGGCACCCAGCGCGCTGTC
+GCAGTGACCGCTGATCATGAAGTCACCTCT
+>C_II_XVIIIb-99/2
+TAGTGTTATCAGTCAGCTCCATGTTCCTTGGAAGATGAAAGCAAGTAAACTGCTCATCTC
+CACTGTCACACTTTGTGCACCCTCCACTGACACTGAGAATCTCTCCTTCCACAAGTTCTA
+TGGTGTCAGGATTAGAGACGCCTAGTATCT
+>C_II_XVIIIb-97/2
+GTCCCTAGCGTCTTCGTCTACTGAGGAAATATTCGCCCATTCACTCTCACCTCCTTCTCT
+TTAAGTGGATATGATACTGCCACACTGTCATCTCTTAGGTACTCAAGGGTTGTCAAGTAT
+TCCATCTCCTTGTATGGATCAAAATCATTT
+>C_II_XVIIIb-95/2
+GTTCTTGTACAGTTCAGTCATGTATAGGACGGTGTTGTTTAGGCCTCTCACTCTCAGATA
+GTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGTGCCGCATATTCGAATAAGCGGAC
+CACATCTGAATTCTGGGCCTCACTGATCCA
+>C_II_XVIIIb-93/2
+TAAAATTCGCTTCTTTCGGATGAGATGAACCCGGCACGGCGACATTTCGGACCAACACCA
+ACACAGTTTCTAAATTCGGTCGTCTATAGGAATCTACAAGCGGAAGTTCCATGTAAAGAA
+GGATTTGTCCAGGAGTTCTACCCATTATGG
+>C_II_XVIIIb-91/2
+ATCAACAACATAGGTACGCGAAACCTGGTAGAAGGTTTGGAGCCCATATTGCGTTCATAA
+TGTGCTAGTTAGGTTCCAGACTCTTCTACACGTGTTTTTTCTAATTAGATAGACAGGTGA
+ACTAGCTATAAGCAATCAAGATAGACTATT
+>C_II_XVIIIb-89/2
+TGTGTGATTTTACAAGGGTGCGAGCCTGTAGAGGGTTGTGATGGCAATCAACCATTCAGT
+GCAAGGCGTTTGATCTTCCTGATCTCTTCAATCTACCTGGCTGCATCCAGCTTGCTCAGG
+AGCTTAGCTGAGGAGCTTGGATGCATTGGG
+>C_II_XVIIIb-87/2
+AGAAGTTGTCACAAACTTTGTGAAGCTAACTTATCACCATATCCGGAGAATCATCTGACC
+TTACCTCTCTCGATACGGCTATTACTTGAATGTCACCTTGTACCATGCAGGCAAAACGAC
+AGTGTGATCTTGCTGCAGCAAGTTGGATTG
+>C_II_XVIIIb-85/2
+GGAAGTGCACTTGTCGGCTAGGTTGTGCAGTGGGGTGGGTCGGGGAGCGTAGGAGAGTTC
+TGGGAGGATGGTTTGGGGTGACCTTATGGGGGCAGGCTGGGTGTTGCCGTTCAGTACCCC
+CAGTCAGTGTCATTATCTTGGGATGGCCCA
+>C_II_XVIIIb-83/2
+TTAAGGCATGTTGATGCCGTGTATGCTGCCTTGATGCTGCTTGAACTCACTGGGGTTACT
+CGACTGCGGGATATGTTAACGAATACTGCAGACACGGGATTGAGTCTTGCCTGTCCATCA
+TCAAGCATTGTCCCGAATACCCCTCGTAGG
+>C_II_XVIIIb-81/2
+ATTCAGCAGAGACCGCGTGAAGTATCGCAGTTCCACAAGGCAAGACCAAGGCACTGAGCA
+CTGCATGGGAGAAGCACGGAAGTGTCCAATCAAATGTCGGCCAGGACGCCCCCGACCAAC
+AAGCCAGACCAGACAAACAGCCGTCCGCAC
+>C_II_XVIIIb-79/2
+AGAAGCACGGGCGTGTCCAATCAAATGCAGGCCAGGACGCCCCCGACCAACAAGCCAGAC
+CAGACAAACAGCCGTCCGCACCCGAGCAGGCGGCCCAACACAGTGACCCGCCGGCCACAT
+CCACCGAGTCCTCTCCCGCCCAGGCTGCAG
+>C_II_XVIIIb-77/2
+GCAATTTTGTTCAGAGATGATGTTTTCTTGTCTAGTAGATCCAATCACCCATTAGTCTCC
+TCTAATATGTGTTCGCTGACGCTAGCAGACTATGCCCGGAACAGAAGCTGGTTACCTTTG
+ACAGGGGGTAGGAAGATACTAGGCGTATCT
+>C_II_XVIIIb-75/2
+CATTGCTTCTACACCTGTGGCTCATGTCCAGCTACCTGTCGACTTTGTGCAAATGATGAT
+GTCTATGATGGAGGCATTATCACAGAAGGTAAGTAAAGTTGACTATCAACTAGATCTAGT
+CTTAAAACAGACATCTTCTATCCCTATGAT
+>C_II_XVIIIb-73/2
+TACAGTCAAGGAACGGTACTTGAGGGAACAACGGTGCCAGGATAGTGTCTCTGTCCTCTC
+TTTCCCTGATCAGATTAAGACTCTTCCTGGACATGTAATATAGATTGGCGGGAAATGTGA
+TTATGTTGGGAGATATGATAGAGTTCACTT
+>C_II_XVIIIb-71/2
+GTAATAAGAGCAGATATGCCGGTCAGTCTTACATTGACTTTGTCTAGCTTGCTGTTACTT
+TTTGCCAACTTATCCAAGGCATTGCTTATTGAATTGTTGACATTTCCAAGCTCAATTGAT
+ATATCGAGATTGCCGGTCACGATGACTTGA
+>C_II_XVIIIb-69/2
+CGAGGTCTATATGTTGACTGCCTTATCTCCTGTTATTACAATCCCCGCAGCTGCAAGGGG
+CCTGCCATCAAGGGAGTTTGTCAGACAGACGCAGCTTAATATCAGCATAGTCCGAATGAT
+CAGCATCAGAGGTACTGGAATCCTGGTAGA
+>C_II_XVIIIb-67/2
+CCCTTTCACCTGCCTTCAGCCATGTAACCCCATCCGACCGAGCCAACACAGGCGTAACTC
+GGTTCGCCAACAATCCACTCAGAGCCCGAGGTATTAGAAAAAAATACGGGTAGAAGGGAG
+ACACCTGGAGACCAGGACGAGTCACCAAAG
+>C_II_XVIIIb-65/2
+GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT
+ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC
+CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG
+>C_II_XVIIIb-63/2
+CACCTCGATTTCCGCATATTCGAATAAGCAGACAACATCTGAATTCTGGGCCTCACTGAT
+CCAATTTCGTGTGTTGTCATACACTATTATAGCATCATTCTTGATAGAGGTATCTTCATC
+ATAAGAAACCACTGATTGGCCGATCAACTT
+>C_II_XVIIIb-61/2
+GTTAGTCCTCTGACTGTCCGATAGTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGT
+GCCGCATATTCGAAAAAGCGGTCCACATCTGAATTCTGGGCCTCACTGATCCAATTTCGT
+GTGTTGTCATACACTATTATAGCATCATTC
+>C_II_XVIIIb-59/2
+CCTTGTATGTATAAAAATCATTTGTTTCTAATATCTCAATCAAGAGGCGATTAGTTGAGG
+TCGCCTCTTTTATCTGTTTCTTTTGGTCCTCAGAGAGGAGGTTCCGCCTGAATGAGGCGA
+GCCAGTTATCTTTCGGATGTGCGATTGCCT
+>C_II_XVIIIb-57/2
+CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA
+ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAAAGGGCAGAGCAC
+CAGCTTATCCTACCAGAGTCACATCTATCC
+>C_II_XVIIIb-55/2
+ATGCAGTGGGCGGGAGGTGATTAATGCACGGGCCGTTTCCTTCTCCACTGCCATATCAGG
+CCCACCTGCAGTAGCAGATTTAACTAGGTCTGAAGGCTGCTGTACCGGTTGTGAGAGTTT
+ATTGAGTGTCATTTCACCCCCTTGTGTCAC
+>C_II_XVIIIb-53/2
+CTCTGAGACTTTAGTGCCCAGAACGTCACAACCTAAAGGAGTTGCACTCACACTGCAGGA
+CTTCCGACTTTGGGTGTCATCTAAGTTGATAGAACGCAGAGTAGAAAAGAATACCCTCCC
+TGTCGCAGATACCCGAAGCACACCAAGTGC
+>C_II_XVIIIb-51/2
+TTAAGGATGGTAACCTCAATTAAGTTCATGTATAATCCTAGCCCTATATCAGAGAAGGAT
+TTTGCAAGACTCGACTTAGCTATCTTCAAGAGTTATGAGCTTAATTTGGAGTCATATTCC
+ACACTGGAGCTGATGAACATTCTTTCAATC
+>C_II_XVIIIb-49/2
+GACCCGATTTCCTTGGAAGAACGGTGCAATCTGTTCAGCTAGAATCCCTTCTGCCATTAC
+CTGGCAGTTCCTTAGCTTCTTTGTCAACTTAGCAAAAATTCTCCCATTCACTTTCACCTC
+CTTCTCGTTAAGTGAATAGGATACTGCCAC
+>C_II_XVIIIb-47/2
+TCGCACTCAATATCTTTCGCGATGCCCGGTGTTAAACTGAATAACAACACAAGCCCAGAT
+CCCGTGCTGCCGGGTAGCCACAATCTAACAACACTGACATGATTAGTCTGAGTCCTGTTT
+TTGGCCACTTTAGTAAGAAAAAATAAAAAA
+>C_II_XVIIIb-45/2
+GATCTTGGATGTTACAATACTAGGGCCAAGAGTCAAAGATATCAACAAAATAGGTGATGT
+AATTAGCCTAGTACTCAGAGGTAAGGTTTCCCTGGAGGACCTCATCCCACTAAGGACATA
+CCTGAAGCGCAGTACCTGCCCTAAGTATCT
+>C_II_XVIIIb-43/2
+GGGGCAGCGAATGAGAGAGGATATGGGGCGCCTGTTCATGACCCAGATTATATCGGAGGG
+ATAGGCAGAGAACTCATAGTAGACGACACCAGTGATGTCACATCATTTTATCCTTCCGCA
+TATCAATAACACTTGAATTTTATCCCGGCG
+>C_II_XVIIIb-41/2
+GTCCTTCTCCACTGCCATATCAGGCCCACCTGCAGTAGCAGATTTAACTAGCTCTGAAGG
+GTGCTGTACCGGTTGTGAGAGTTTATTGAGTGTCATTTCACCCCCTTGTGTCACATAAGG
+AGATGGGTCTCCAGGGCCCGAAATTAAAAC
+>C_II_XVIIIb-39/2
+AAGGCCGCGTGTCAAGGCCGCTACAATATGCGGGAAGGTCATTGGGCAGCTTCATGCCGA
+TTCAGCGGAGATCTCACACGATGTCATGGTGAGAGAGTGCAAGAGTTTATCTGCCCTCGA
+ATTTGAGCCATGCATAGAGTATGACCCCGT
+>C_II_XVIIIb-37/2
+GATAGGTAAGGTCTGATGATTCTGCGGATCTGGTGTTAACTCAGCTGCACCAAGCTAGGG
+ATAACTTCTTTAAGGAATTAATTCATGTCAATCATCTGATTGGTCATAACTTGAAAGATC
+GTGAAACCATCAGGTCAGACACATTCTTCA
+>C_II_XVIIIb-35/2
+CTGAGTGGTTCGTTAGCATCTTCGCTAACAGCAATCCGAAGACACAATACCGCAAAATTC
+CATCTATCCTCTGGATCATCACTGTTAAGAGTAAATACTGGGACTTCAACTTTTAAAGTG
+CTCCCTTTCTCTCCTCCTCCGTGAGTTCCG
+>C_II_XVIIIb-33/2
+CATAGGGATAGAACATGTATGTTTTAAGACGAGATCTAGTTGATAGTCAACTTTACTTAC
+CTTCTGTGATAATGCCTCCATCATAGACATCATCATTTGCACAAAGTCGACAGGTAGCTG
+GACATGATCCACAGGTGCAGGAGCATTGTC
+>C_II_XVIIIb-31/2
+GTGCATCAATACTCGAATGAGTAAGGGTACAGCCAATGCTTTCTCCTCTGTCTCATTGTC
+CTCCGTATGCACTCCGGATAATAAAGGGTTTGAACAAGTCTCAAATAAGACCTTTTGTGT
+ATGCTTCTTGAGGACAATATTTGGGCTTGC
+>C_II_XVIIIb-29/2
+CTCAGTTGCACAAACTCGACAGGTAGCTGCATATGATCCACAGGTGCAGGAGTATTGTCT
+TGGTTCTGCCCTGACTGGGGCACATGAGGGGTTGCACCAGCTGATGGTTGTGACTCCTTC
+CATAGTCCATGATATGCTGTGTTCGCGTCT
+>C_II_XVIIIb-27/2
+TATAGGAATCTACAAGCGGAAGTGTAATGTAAATAAGGATTTGTCCAGGAGTTCTACCCA
+TTATGGAGAGAGAATGCAGAAGAAAGCGACCTGACTTCAGATAGAGCAGTGGGATATATC
+ACATCTGTAGTGCCCCACAGGTCTGTAGCA
+>C_II_XVIIIb-25/2
+CAAAGACGTGGGGCATCTTATGAACTAACGTTACTAGCTTGGCGACTGCGGATCTTGTTC
+TTGCTGCTACAATCAGATGCCTTTGGACCTGTTTTATATGGAGCCATGCAAACTTGGCTC
+TGGACCACTTTGAGGGAAACCAGAATGCCG
+>C_II_XVIIIb-23/2
+ATGACCAGCATTATATCCGAGGGCTAGGCCGAGAACTCATAGTAAACGACACCAGTGATG
+TCACATCATTTTATCCTTCCGCATATCAAGAACACTTGAATTTTATCCCGGCGCCTTCTA
+CAGGGTCTGGTTGCACTCGGATACCCTCAT
+>C_II_XVIIIb-21/2
+CACAAGCAAAACAAAACACATCACTAGGGCTCGGAAACAATACCCTTGATCAGATGAGGG
+CCAATACAAGAGCATGACCTCAAATGAGAATTGGATGCACGTACAGCAGCAGCCTGTATG
+TCAATTCTGACAGCCTGTCAGATCGAAAAC
+>C_II_XVIIIb-19/2
+ACTAGATCTAGTTGATAGTCAAGTTTACTTACCTTCTGTGATAATGCCTCCATCATAGAC
+ATCATCATTTGCACAAAGCCGACAGGTAGCTGGACATGATCCACAGGTGCAGGAGTATTG
+TCTTGGTTCTGCCCTGACTGGGGCACATGA
+>C_II_XVIIIb-17/2
+GTACATATTCCCTGGATATGAGCCTGAGACCACGGGTCTGGTGCATGAGACTAATAGTTT
+CGCAGACATTTCGATGAAATCTATATCTGCCAGCTGGTGTGACCCGTCATGGTTAATTAG
+GCCTACTGCATTCAACCTTGGGTGTATAAT
+>C_II_XVIIIb-15/2
+AACTGGCGCCCCACATCCACTAGTATTCACAGACCCGTTGATTTGATAAGAGAGGGATGT
+TATTGCATTCATAATTATAGATTCGGTGTTTAGTAGCGCTAGCGGAGATTCAAGAGCCAC
+CTGTTTATATATCCTATCTGTCACATCTTG
+>C_II_XVIIIb-13/2
+TGACCTCCAGGATCTGTAGTGTGCACTGTTTAAGTGATGTTCTCTTTTTCCCGTCTGTAG
+AGAGGTTATAAGGAGTAAATAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGT
+AGATCACAGATCTAATGACTGTGTCAATGT
+>C_II_XVIIIb-11/2
+CACCTCATGCCATCGTCGTGTCACGGAAATCCTATCTAGTCCCCTACCGAGGCTGATGAA
+GTTCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCC
+CTTTTGTGCAGAAAGTTTGGTGAGCACACT
+>C_II_XVIIIb-9/2
+ACAATGCCCGGTTCGGGGGATTTAGAATCGTTCCATTACTAGTTGAGATCCTCAAGGATG
+ATAGAGTTTAAGGGATTAGACCCAGGCAATTGAATCAGCCATAGGACGGCTGGAAGAATG
+ATATGGCACTGAATATCTTTCGCGATGCCA
+>C_II_XVIIIb-7/2
+CTCATGAACCGTTGCTTGAGCTTCATCCAGTACAAGACATCGGTGCTCGGGTGAAAGACC
+CGTTAACCCGACAACCTGCATCATTTATACAAGAGCTAGATTTGAGTGCTCCAGCAAGGT
+ATGATGCATTTACGCTTAGCGAGATTTGCC
+>C_II_XVIIIb-5/2
+ATCTCCACAGCAATTTTTGCTTGTGTATCCGGGAAGCGCCTGTTGCGGTTCCTTTCGAGC
+TACTTGGATTGGCACCAGAATTAAGGATGGTAACCTCAAATAAGTTCATGTATGATCCTA
+GCCCTATATCAGAGAAGGATTTTGCAAGAC
+>C_II_XVIIIb-3/2
+TCAGCTTGTATCCGTTCTGCCATTACCTGGCGGGTCCTTAGCTTCTTTGTCAACTTAGCA
+AAAATTCGCCCATTCACTTTCACCTCCTTCTCTTTAAGTGAATATGATACTGCCACACTG
+TCATCTCTTAGGTACTCAAGGGTTGTCAAG
+>C_II_XVIIIb-1/2
+AAAAGTGAGGGGGCGAACTTTTGCTAAGTTTACACAGAAGCTAAGGAACTGCCAGGTAAT
+GGCAGAAGGGATTCTAGCTGACCAGATTGCTCCTTTCTTCCAAGGAAATGGGGTCATTCA
+AGATAGCATATCCTTGACTAAGAGTATGTT
+>HQ630064-957/2
+CTGATCCAGTGGCCCTTCGTTACTCACGAAGTATCTGTGCATTTATACGTGACGCCACGC
+TAACAAGGAAGCGCCGCGCAATTTGCTCACGGTTGGGCGTAGCTCTGTGCTCGAGCGCAC
+GCGAAAAATTCTCGTCTCATTTCCCCTTAC
+>HQ630064-665/2
+TCGAATAGGCCGTGGTTTGCGGCCGTACTCGTAGAAGCACAAAATATCGCCCTACTCGTG
+TGTCAAAAAGGAAAAGTCTTAATGGGCTGTGAAGTGATCTGGAGATCAAAGCGGCACTCT
+CTTTGAGAAGTCTCTTCTCGAGACTCTCTC
+>HQ630064-403/2
+TACGGTGGGGGTCACAACAATTTAACCAATGAAATGTTTCTTTATTATAAGAGCGGTATA
+GCAGATTTAATAAAATACCTTTTTTGAAAAAATATTGACCTGTCTCGCGTTGTAGATTCT
+TCGCATCCGCGTTCCGTCATAATTCCAAGA
+>HQ630064-343/2
+CTCCCGTGCATGTATACGTGACGCCACGCTAACAAGGAAGCGCCGCGCAATTTGCTCACG
+GTTGGGCGTAGCTCTGTCCTCGAGCGCACGTGAAAAATTCTCGTCTCATTTCCCCTTACC
+ACACCACACCAAACACTGGTAGTAAAACCG
+>HQ630064-307/2
+TTTTTCACAGACGGGGACGTTCTCATCTAACTTCGGGGATCCTGGGGATATATTTTATAG
+CGATGTAGTAGGGGGAGATGGCCCAATATTCGAAGATCCAGAGGACATTTGTACCCGTAG
+ACCGGAATATGGAGAAAAGCTAAAAGAACA
+>HQ630064-241/2
+CATAATCATTTACAAAACGCGGGACCTCGACAATATGCGGGAAAATCTAACAGCAATCTA
+TCTTGGAGAATACGCTCTTCCGAAAGACCGTGGGAAAAAATTAGAAAATTTACCCACGGA
+CCCAAGTCCCGCTTTGCCATTTTAGGAAAA
+>HQ630064-217/2
+AAATCGCATGTCACACCCCAGCGTCGGAAAAACCGCCCGAGACGAAGTTGCTTCTTCTTT
+GGGGCCCCCTCTTTTTTAAGCTACAAAATTTGCTTTGAGGCCTTTTCCTTTCTTTCTTTC
+TTTCGCGTGTGATTGACGGGGGTTTACGTG
+>HQ630064-199/2
+CCGTTAGCACTTAAGTAACCGGAGCTTGGCAACACCAAGGCCTCATCCCAACATCCAAAG
+CACTCGAGCAAACGCAGGAGTAGCAAATCTCGCTATTTCAAAGCTTCAGAATCGTGTAAT
+ACACCGTCACGCTTGCTATCTTTCTCATCT
+>HQ630064-111/2
+GAAACTTGAATAAGAGCTCCCCAACTACGCTGCTAGAACTAGCAAATTTTATGCTCGCCA
+ACAAGGTGTTGGAGTTCTGCGACCACGGAGAGATGGCCGGCAGAGCACAATATTATATAA
+GTACTCCATCGATGATCATTACGACCTCCA
+>HQ630064-105/2
+TTATTAAATTGTTATTTCCACCACCGCAGAGCAATACCGTGATGTTCTTTACGCCCTCTT
+CTCCGGTCGTTGTGTTGTCCATACATCTCGTCTTCCCTCAGCGCTGCCCGCAAATGGTTC
+AACGTATGTCGGTTGGTTGACTATGTCCTA
+>HQ630064-11/2
+TGGGCGTAGTTCTGTCCTCGAGCGCACGCGAAAAATTCTCGTCTCATTTCCCCTTACCAC
+ACCACACCAAACACTGGTAGTAAAATCGCATAATGCACCCCAACGTCGGAAACACAGCCC
+GAGACGATGTTGCTTCTTCTTTAGGGCCCC
+>HQ630064-3/2
+CCACAGTTATTTGCAATAGGACTCGAGTGAGTTTTAAGAAGAGACTTCTCAAAGAGAGAG
+CCGCTTTGATCTCCAGATCACTTCACAGCCCATTAAGACTTTTCCTTTTTGACACACGAG
+TAGGGCGATATTTTGTGCTTATCCGAGAAC
diff -r 000000000000 -r d491c23394f9 test-data/out2.k2.11176.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out2.k2.11176.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,28 @@
+>C_II_XVIIIb-65/2
+GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT
+ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC
+CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG
+>C_II_XVIIIb-57/2
+CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA
+ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAAAGGGCAGAGCAC
+CAGCTTATCCTACCAGAGTCACATCTATCC
+>C_II_XVIIIb-49/2
+GACCCGATTTCCTTGGAAGAACGGTGCAATCTGTTCAGCTAGAATCCCTTCTGCCATTAC
+CTGGCAGTTCCTTAGCTTCTTTGTCAACTTAGCAAAAATTCTCCCATTCACTTTCACCTC
+CTTCTCGTTAAGTGAATAGGATACTGCCAC
+>C_II_XVIIIb-45/2
+GATCTTGGATGTTACAATACTAGGGCCAAGAGTCAAAGATATCAACAAAATAGGTGATGT
+AATTAGCCTAGTACTCAGAGGTAAGGTTTCCCTGGAGGACCTCATCCCACTAAGGACATA
+CCTGAAGCGCAGTACCTGCCCTAAGTATCT
+>C_II_XVIIIb-17/2
+GTACATATTCCCTGGATATGAGCCTGAGACCACGGGTCTGGTGCATGAGACTAATAGTTT
+CGCAGACATTTCGATGAAATCTATATCTGCCAGCTGGTGTGACCCGTCATGGTTAATTAG
+GCCTACTGCATTCAACCTTGGGTGTATAAT
+>C_II_XVIIIb-9/2
+ACAATGCCCGGTTCGGGGGATTTAGAATCGTTCCATTACTAGTTGAGATCCTCAAGGATG
+ATAGAGTTTAAGGGATTAGACCCAGGCAATTGAATCAGCCATAGGACGGCTGGAAGAATG
+ATATGGCACTGAATATCTTTCGCGATGCCA
+>C_II_XVIIIb-1/2
+AAAAGTGAGGGGGCGAACTTTTGCTAAGTTTACACAGAAGCTAAGGAACTGCCAGGTAAT
+GGCAGAAGGGATTCTAGCTGACCAGATTGCTCCTTTCTTCCAAGGAAATGGGGTCATTCA
+AGATAGCATATCCTTGACTAAGAGTATGTT
diff -r 000000000000 -r d491c23394f9 test-data/out2.k2.11176.max2.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out2.k2.11176.max2.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,8 @@
+>C_II_XVIIIb-65/2
+GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT
+ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC
+CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG
+>C_II_XVIIIb-57/2
+CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA
+ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAAAGGGCAGAGCAC
+CAGCTTATCCTACCAGAGTCACATCTATCC
diff -r 000000000000 -r d491c23394f9 test-data/out2.k2.11176.parents.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out2.k2.11176.parents.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,76 @@
+>C_II_XVIIIb-99/2
+TAGTGTTATCAGTCAGCTCCATGTTCCTTGGAAGATGAAAGCAAGTAAACTGCTCATCTC
+CACTGTCACACTTTGTGCACCCTCCACTGACACTGAGAATCTCTCCTTCCACAAGTTCTA
+TGGTGTCAGGATTAGAGACGCCTAGTATCT
+>C_II_XVIIIb-97/2
+GTCCCTAGCGTCTTCGTCTACTGAGGAAATATTCGCCCATTCACTCTCACCTCCTTCTCT
+TTAAGTGGATATGATACTGCCACACTGTCATCTCTTAGGTACTCAAGGGTTGTCAAGTAT
+TCCATCTCCTTGTATGGATCAAAATCATTT
+>C_II_XVIIIb-93/2
+TAAAATTCGCTTCTTTCGGATGAGATGAACCCGGCACGGCGACATTTCGGACCAACACCA
+ACACAGTTTCTAAATTCGGTCGTCTATAGGAATCTACAAGCGGAAGTTCCATGTAAAGAA
+GGATTTGTCCAGGAGTTCTACCCATTATGG
+>C_II_XVIIIb-87/2
+AGAAGTTGTCACAAACTTTGTGAAGCTAACTTATCACCATATCCGGAGAATCATCTGACC
+TTACCTCTCTCGATACGGCTATTACTTGAATGTCACCTTGTACCATGCAGGCAAAACGAC
+AGTGTGATCTTGCTGCAGCAAGTTGGATTG
+>C_II_XVIIIb-85/2
+GGAAGTGCACTTGTCGGCTAGGTTGTGCAGTGGGGTGGGTCGGGGAGCGTAGGAGAGTTC
+TGGGAGGATGGTTTGGGGTGACCTTATGGGGGCAGGCTGGGTGTTGCCGTTCAGTACCCC
+CAGTCAGTGTCATTATCTTGGGATGGCCCA
+>C_II_XVIIIb-75/2
+CATTGCTTCTACACCTGTGGCTCATGTCCAGCTACCTGTCGACTTTGTGCAAATGATGAT
+GTCTATGATGGAGGCATTATCACAGAAGGTAAGTAAAGTTGACTATCAACTAGATCTAGT
+CTTAAAACAGACATCTTCTATCCCTATGAT
+>C_II_XVIIIb-65/2
+GCAAATACCACTTTGCCAGGGCCTTTATGTGCACATCAGTCTGGAGGCTTGGAGTAGAGT
+ATGCTCAGGCTCAGGGAAGTAGCATCAATGAAGACATGGCTGCTGAACTAAAACTGACTC
+CGGCAGCAAGGAGAGGTCTGGCGGCTGCTG
+>C_II_XVIIIb-57/2
+CTGGTATGGGCCACTTTATTAAGAAAAACTAAAAAAAGCATTGTAATATAAAGGAAACCA
+ACACACAAAAGAAAGCACGGGTAGGACATGGCAGGCTCTGGTCCCGAAAGGGCAGAGCAC
+CAGCTTATCCTACCAGAGTCACATCTATCC
+>C_II_XVIIIb-49/2
+GACCCGATTTCCTTGGAAGAACGGTGCAATCTGTTCAGCTAGAATCCCTTCTGCCATTAC
+CTGGCAGTTCCTTAGCTTCTTTGTCAACTTAGCAAAAATTCTCCCATTCACTTTCACCTC
+CTTCTCGTTAAGTGAATAGGATACTGCCAC
+>C_II_XVIIIb-45/2
+GATCTTGGATGTTACAATACTAGGGCCAAGAGTCAAAGATATCAACAAAATAGGTGATGT
+AATTAGCCTAGTACTCAGAGGTAAGGTTTCCCTGGAGGACCTCATCCCACTAAGGACATA
+CCTGAAGCGCAGTACCTGCCCTAAGTATCT
+>C_II_XVIIIb-43/2
+GGGGCAGCGAATGAGAGAGGATATGGGGCGCCTGTTCATGACCCAGATTATATCGGAGGG
+ATAGGCAGAGAACTCATAGTAGACGACACCAGTGATGTCACATCATTTTATCCTTCCGCA
+TATCAATAACACTTGAATTTTATCCCGGCG
+>C_II_XVIIIb-33/2
+CATAGGGATAGAACATGTATGTTTTAAGACGAGATCTAGTTGATAGTCAACTTTACTTAC
+CTTCTGTGATAATGCCTCCATCATAGACATCATCATTTGCACAAAGTCGACAGGTAGCTG
+GACATGATCCACAGGTGCAGGAGCATTGTC
+>C_II_XVIIIb-29/2
+CTCAGTTGCACAAACTCGACAGGTAGCTGCATATGATCCACAGGTGCAGGAGTATTGTCT
+TGGTTCTGCCCTGACTGGGGCACATGAGGGGTTGCACCAGCTGATGGTTGTGACTCCTTC
+CATAGTCCATGATATGCTGTGTTCGCGTCT
+>C_II_XVIIIb-19/2
+ACTAGATCTAGTTGATAGTCAAGTTTACTTACCTTCTGTGATAATGCCTCCATCATAGAC
+ATCATCATTTGCACAAAGCCGACAGGTAGCTGGACATGATCCACAGGTGCAGGAGTATTG
+TCTTGGTTCTGCCCTGACTGGGGCACATGA
+>C_II_XVIIIb-17/2
+GTACATATTCCCTGGATATGAGCCTGAGACCACGGGTCTGGTGCATGAGACTAATAGTTT
+CGCAGACATTTCGATGAAATCTATATCTGCCAGCTGGTGTGACCCGTCATGGTTAATTAG
+GCCTACTGCATTCAACCTTGGGTGTATAAT
+>C_II_XVIIIb-9/2
+ACAATGCCCGGTTCGGGGGATTTAGAATCGTTCCATTACTAGTTGAGATCCTCAAGGATG
+ATAGAGTTTAAGGGATTAGACCCAGGCAATTGAATCAGCCATAGGACGGCTGGAAGAATG
+ATATGGCACTGAATATCTTTCGCGATGCCA
+>C_II_XVIIIb-5/2
+ATCTCCACAGCAATTTTTGCTTGTGTATCCGGGAAGCGCCTGTTGCGGTTCCTTTCGAGC
+TACTTGGATTGGCACCAGAATTAAGGATGGTAACCTCAAATAAGTTCATGTATGATCCTA
+GCCCTATATCAGAGAAGGATTTTGCAAGAC
+>C_II_XVIIIb-3/2
+TCAGCTTGTATCCGTTCTGCCATTACCTGGCGGGTCCTTAGCTTCTTTGTCAACTTAGCA
+AAAATTCGCCCATTCACTTTCACCTCCTTCTCTTTAAGTGAATATGATACTGCCACACTG
+TCATCTCTTAGGTACTCAAGGGTTGTCAAG
+>C_II_XVIIIb-1/2
+AAAAGTGAGGGGGCGAACTTTTGCTAAGTTTACACAGAAGCTAAGGAACTGCCAGGTAAT
+GGCAGAAGGGATTCTAGCTGACCAGATTGCTCCTTTCTTCCAAGGAAATGGGGTCATTCA
+AGATAGCATATCCTTGACTAAGAGTATGTT
diff -r 000000000000 -r d491c23394f9 test-data/out2.k2.exclude_both.fa
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/out2.k2.exclude_both.fa Thu Sep 30 17:54:31 2021 +0000
@@ -0,0 +1,176 @@
+>C_II_XVIIIb-101/2
+GGGACCGCGTGCTAGCCCATAGCAAATGCCTCTCCACAGGTTGCTAAGATACTCTGGAGC
+CAAACCGCGCACCTGCGGAGCGTGAAAGTCATCATTCAAGCTGGCACCCAGCGCGCTGTC
+GCAGTGACCGCTGATCATGAAGTCACCTCT
+>C_II_XVIIIb-95/2
+GTTCTTGTACAGTTCAGTCATGTATAGGACGGTGTTGTTTAGGCCTCTCACTCTCAGATA
+GTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGTGCCGCATATTCGAATAAGCGGAC
+CACATCTGAATTCTGGGCCTCACTGATCCA
+>C_II_XVIIIb-91/2
+ATCAACAACATAGGTACGCGAAACCTGGTAGAAGGTTTGGAGCCCATATTGCGTTCATAA
+TGTGCTAGTTAGGTTCCAGACTCTTCTACACGTGTTTTTTCTAATTAGATAGACAGGTGA
+ACTAGCTATAAGCAATCAAGATAGACTATT
+>C_II_XVIIIb-89/2
+TGTGTGATTTTACAAGGGTGCGAGCCTGTAGAGGGTTGTGATGGCAATCAACCATTCAGT
+GCAAGGCGTTTGATCTTCCTGATCTCTTCAATCTACCTGGCTGCATCCAGCTTGCTCAGG
+AGCTTAGCTGAGGAGCTTGGATGCATTGGG
+>C_II_XVIIIb-83/2
+TTAAGGCATGTTGATGCCGTGTATGCTGCCTTGATGCTGCTTGAACTCACTGGGGTTACT
+CGACTGCGGGATATGTTAACGAATACTGCAGACACGGGATTGAGTCTTGCCTGTCCATCA
+TCAAGCATTGTCCCGAATACCCCTCGTAGG
+>C_II_XVIIIb-81/2
+ATTCAGCAGAGACCGCGTGAAGTATCGCAGTTCCACAAGGCAAGACCAAGGCACTGAGCA
+CTGCATGGGAGAAGCACGGAAGTGTCCAATCAAATGTCGGCCAGGACGCCCCCGACCAAC
+AAGCCAGACCAGACAAACAGCCGTCCGCAC
+>C_II_XVIIIb-79/2
+AGAAGCACGGGCGTGTCCAATCAAATGCAGGCCAGGACGCCCCCGACCAACAAGCCAGAC
+CAGACAAACAGCCGTCCGCACCCGAGCAGGCGGCCCAACACAGTGACCCGCCGGCCACAT
+CCACCGAGTCCTCTCCCGCCCAGGCTGCAG
+>C_II_XVIIIb-77/2
+GCAATTTTGTTCAGAGATGATGTTTTCTTGTCTAGTAGATCCAATCACCCATTAGTCTCC
+TCTAATATGTGTTCGCTGACGCTAGCAGACTATGCCCGGAACAGAAGCTGGTTACCTTTG
+ACAGGGGGTAGGAAGATACTAGGCGTATCT
+>C_II_XVIIIb-73/2
+TACAGTCAAGGAACGGTACTTGAGGGAACAACGGTGCCAGGATAGTGTCTCTGTCCTCTC
+TTTCCCTGATCAGATTAAGACTCTTCCTGGACATGTAATATAGATTGGCGGGAAATGTGA
+TTATGTTGGGAGATATGATAGAGTTCACTT
+>C_II_XVIIIb-71/2
+GTAATAAGAGCAGATATGCCGGTCAGTCTTACATTGACTTTGTCTAGCTTGCTGTTACTT
+TTTGCCAACTTATCCAAGGCATTGCTTATTGAATTGTTGACATTTCCAAGCTCAATTGAT
+ATATCGAGATTGCCGGTCACGATGACTTGA
+>C_II_XVIIIb-69/2
+CGAGGTCTATATGTTGACTGCCTTATCTCCTGTTATTACAATCCCCGCAGCTGCAAGGGG
+CCTGCCATCAAGGGAGTTTGTCAGACAGACGCAGCTTAATATCAGCATAGTCCGAATGAT
+CAGCATCAGAGGTACTGGAATCCTGGTAGA
+>C_II_XVIIIb-67/2
+CCCTTTCACCTGCCTTCAGCCATGTAACCCCATCCGACCGAGCCAACACAGGCGTAACTC
+GGTTCGCCAACAATCCACTCAGAGCCCGAGGTATTAGAAAAAAATACGGGTAGAAGGGAG
+ACACCTGGAGACCAGGACGAGTCACCAAAG
+>C_II_XVIIIb-63/2
+CACCTCGATTTCCGCATATTCGAATAAGCAGACAACATCTGAATTCTGGGCCTCACTGAT
+CCAATTTCGTGTGTTGTCATACACTATTATAGCATCATTCTTGATAGAGGTATCTTCATC
+ATAAGAAACCACTGATTGGCCGATCAACTT
+>C_II_XVIIIb-61/2
+GTTAGTCCTCTGACTGTCCGATAGTAGAGTTGGTAAGAACAGTCAAGGAGCACCTCGAGT
+GCCGCATATTCGAAAAAGCGGTCCACATCTGAATTCTGGGCCTCACTGATCCAATTTCGT
+GTGTTGTCATACACTATTATAGCATCATTC
+>C_II_XVIIIb-59/2
+CCTTGTATGTATAAAAATCATTTGTTTCTAATATCTCAATCAAGAGGCGATTAGTTGAGG
+TCGCCTCTTTTATCTGTTTCTTTTGGTCCTCAGAGAGGAGGTTCCGCCTGAATGAGGCGA
+GCCAGTTATCTTTCGGATGTGCGATTGCCT
+>C_II_XVIIIb-55/2
+ATGCAGTGGGCGGGAGGTGATTAATGCACGGGCCGTTTCCTTCTCCACTGCCATATCAGG
+CCCACCTGCAGTAGCAGATTTAACTAGGTCTGAAGGCTGCTGTACCGGTTGTGAGAGTTT
+ATTGAGTGTCATTTCACCCCCTTGTGTCAC
+>C_II_XVIIIb-53/2
+CTCTGAGACTTTAGTGCCCAGAACGTCACAACCTAAAGGAGTTGCACTCACACTGCAGGA
+CTTCCGACTTTGGGTGTCATCTAAGTTGATAGAACGCAGAGTAGAAAAGAATACCCTCCC
+TGTCGCAGATACCCGAAGCACACCAAGTGC
+>C_II_XVIIIb-51/2
+TTAAGGATGGTAACCTCAATTAAGTTCATGTATAATCCTAGCCCTATATCAGAGAAGGAT
+TTTGCAAGACTCGACTTAGCTATCTTCAAGAGTTATGAGCTTAATTTGGAGTCATATTCC
+ACACTGGAGCTGATGAACATTCTTTCAATC
+>C_II_XVIIIb-47/2
+TCGCACTCAATATCTTTCGCGATGCCCGGTGTTAAACTGAATAACAACACAAGCCCAGAT
+CCCGTGCTGCCGGGTAGCCACAATCTAACAACACTGACATGATTAGTCTGAGTCCTGTTT
+TTGGCCACTTTAGTAAGAAAAAATAAAAAA
+>C_II_XVIIIb-41/2
+GTCCTTCTCCACTGCCATATCAGGCCCACCTGCAGTAGCAGATTTAACTAGCTCTGAAGG
+GTGCTGTACCGGTTGTGAGAGTTTATTGAGTGTCATTTCACCCCCTTGTGTCACATAAGG
+AGATGGGTCTCCAGGGCCCGAAATTAAAAC
+>C_II_XVIIIb-39/2
+AAGGCCGCGTGTCAAGGCCGCTACAATATGCGGGAAGGTCATTGGGCAGCTTCATGCCGA
+TTCAGCGGAGATCTCACACGATGTCATGGTGAGAGAGTGCAAGAGTTTATCTGCCCTCGA
+ATTTGAGCCATGCATAGAGTATGACCCCGT
+>C_II_XVIIIb-37/2
+GATAGGTAAGGTCTGATGATTCTGCGGATCTGGTGTTAACTCAGCTGCACCAAGCTAGGG
+ATAACTTCTTTAAGGAATTAATTCATGTCAATCATCTGATTGGTCATAACTTGAAAGATC
+GTGAAACCATCAGGTCAGACACATTCTTCA
+>C_II_XVIIIb-35/2
+CTGAGTGGTTCGTTAGCATCTTCGCTAACAGCAATCCGAAGACACAATACCGCAAAATTC
+CATCTATCCTCTGGATCATCACTGTTAAGAGTAAATACTGGGACTTCAACTTTTAAAGTG
+CTCCCTTTCTCTCCTCCTCCGTGAGTTCCG
+>C_II_XVIIIb-31/2
+GTGCATCAATACTCGAATGAGTAAGGGTACAGCCAATGCTTTCTCCTCTGTCTCATTGTC
+CTCCGTATGCACTCCGGATAATAAAGGGTTTGAACAAGTCTCAAATAAGACCTTTTGTGT
+ATGCTTCTTGAGGACAATATTTGGGCTTGC
+>C_II_XVIIIb-27/2
+TATAGGAATCTACAAGCGGAAGTGTAATGTAAATAAGGATTTGTCCAGGAGTTCTACCCA
+TTATGGAGAGAGAATGCAGAAGAAAGCGACCTGACTTCAGATAGAGCAGTGGGATATATC
+ACATCTGTAGTGCCCCACAGGTCTGTAGCA
+>C_II_XVIIIb-25/2
+CAAAGACGTGGGGCATCTTATGAACTAACGTTACTAGCTTGGCGACTGCGGATCTTGTTC
+TTGCTGCTACAATCAGATGCCTTTGGACCTGTTTTATATGGAGCCATGCAAACTTGGCTC
+TGGACCACTTTGAGGGAAACCAGAATGCCG
+>C_II_XVIIIb-23/2
+ATGACCAGCATTATATCCGAGGGCTAGGCCGAGAACTCATAGTAAACGACACCAGTGATG
+TCACATCATTTTATCCTTCCGCATATCAAGAACACTTGAATTTTATCCCGGCGCCTTCTA
+CAGGGTCTGGTTGCACTCGGATACCCTCAT
+>C_II_XVIIIb-21/2
+CACAAGCAAAACAAAACACATCACTAGGGCTCGGAAACAATACCCTTGATCAGATGAGGG
+CCAATACAAGAGCATGACCTCAAATGAGAATTGGATGCACGTACAGCAGCAGCCTGTATG
+TCAATTCTGACAGCCTGTCAGATCGAAAAC
+>C_II_XVIIIb-15/2
+AACTGGCGCCCCACATCCACTAGTATTCACAGACCCGTTGATTTGATAAGAGAGGGATGT
+TATTGCATTCATAATTATAGATTCGGTGTTTAGTAGCGCTAGCGGAGATTCAAGAGCCAC
+CTGTTTATATATCCTATCTGTCACATCTTG
+>C_II_XVIIIb-13/2
+TGACCTCCAGGATCTGTAGTGTGCACTGTTTAAGTGATGTTCTCTTTTTCCCGTCTGTAG
+AGAGGTTATAAGGAGTAAATAAGAATACTGTGTCAGCAAGGTCCCCCTCGGCATCCATGT
+AGATCACAGATCTAATGACTGTGTCAATGT
+>C_II_XVIIIb-11/2
+CACCTCATGCCATCGTCGTGTCACGGAAATCCTATCTAGTCCCCTACCGAGGCTGATGAA
+GTTCTTGGGAGAAAATATTGATGCTGCACTGATCGCAGCAGGGGGACAGCCCGTCCGTCC
+CTTTTGTGCAGAAAGTTTGGTGAGCACACT
+>C_II_XVIIIb-7/2
+CTCATGAACCGTTGCTTGAGCTTCATCCAGTACAAGACATCGGTGCTCGGGTGAAAGACC
+CGTTAACCCGACAACCTGCATCATTTATACAAGAGCTAGATTTGAGTGCTCCAGCAAGGT
+ATGATGCATTTACGCTTAGCGAGATTTGCC
+>HQ630064-957/2
+CTGATCCAGTGGCCCTTCGTTACTCACGAAGTATCTGTGCATTTATACGTGACGCCACGC
+TAACAAGGAAGCGCCGCGCAATTTGCTCACGGTTGGGCGTAGCTCTGTGCTCGAGCGCAC
+GCGAAAAATTCTCGTCTCATTTCCCCTTAC
+>HQ630064-665/2
+TCGAATAGGCCGTGGTTTGCGGCCGTACTCGTAGAAGCACAAAATATCGCCCTACTCGTG
+TGTCAAAAAGGAAAAGTCTTAATGGGCTGTGAAGTGATCTGGAGATCAAAGCGGCACTCT
+CTTTGAGAAGTCTCTTCTCGAGACTCTCTC
+>HQ630064-403/2
+TACGGTGGGGGTCACAACAATTTAACCAATGAAATGTTTCTTTATTATAAGAGCGGTATA
+GCAGATTTAATAAAATACCTTTTTTGAAAAAATATTGACCTGTCTCGCGTTGTAGATTCT
+TCGCATCCGCGTTCCGTCATAATTCCAAGA
+>HQ630064-343/2
+CTCCCGTGCATGTATACGTGACGCCACGCTAACAAGGAAGCGCCGCGCAATTTGCTCACG
+GTTGGGCGTAGCTCTGTCCTCGAGCGCACGTGAAAAATTCTCGTCTCATTTCCCCTTACC
+ACACCACACCAAACACTGGTAGTAAAACCG
+>HQ630064-307/2
+TTTTTCACAGACGGGGACGTTCTCATCTAACTTCGGGGATCCTGGGGATATATTTTATAG
+CGATGTAGTAGGGGGAGATGGCCCAATATTCGAAGATCCAGAGGACATTTGTACCCGTAG
+ACCGGAATATGGAGAAAAGCTAAAAGAACA
+>HQ630064-241/2
+CATAATCATTTACAAAACGCGGGACCTCGACAATATGCGGGAAAATCTAACAGCAATCTA
+TCTTGGAGAATACGCTCTTCCGAAAGACCGTGGGAAAAAATTAGAAAATTTACCCACGGA
+CCCAAGTCCCGCTTTGCCATTTTAGGAAAA
+>HQ630064-217/2
+AAATCGCATGTCACACCCCAGCGTCGGAAAAACCGCCCGAGACGAAGTTGCTTCTTCTTT
+GGGGCCCCCTCTTTTTTAAGCTACAAAATTTGCTTTGAGGCCTTTTCCTTTCTTTCTTTC
+TTTCGCGTGTGATTGACGGGGGTTTACGTG
+>HQ630064-199/2
+CCGTTAGCACTTAAGTAACCGGAGCTTGGCAACACCAAGGCCTCATCCCAACATCCAAAG
+CACTCGAGCAAACGCAGGAGTAGCAAATCTCGCTATTTCAAAGCTTCAGAATCGTGTAAT
+ACACCGTCACGCTTGCTATCTTTCTCATCT
+>HQ630064-111/2
+GAAACTTGAATAAGAGCTCCCCAACTACGCTGCTAGAACTAGCAAATTTTATGCTCGCCA
+ACAAGGTGTTGGAGTTCTGCGACCACGGAGAGATGGCCGGCAGAGCACAATATTATATAA
+GTACTCCATCGATGATCATTACGACCTCCA
+>HQ630064-105/2
+TTATTAAATTGTTATTTCCACCACCGCAGAGCAATACCGTGATGTTCTTTACGCCCTCTT
+CTCCGGTCGTTGTGTTGTCCATACATCTCGTCTTCCCTCAGCGCTGCCCGCAAATGGTTC
+AACGTATGTCGGTTGGTTGACTATGTCCTA
+>HQ630064-11/2
+TGGGCGTAGTTCTGTCCTCGAGCGCACGCGAAAAATTCTCGTCTCATTTCCCCTTACCAC
+ACCACACCAAACACTGGTAGTAAAATCGCATAATGCACCCCAACGTCGGAAACACAGCCC
+GAGACGATGTTGCTTCTTCTTTAGGGCCCC
+>HQ630064-3/2
+CCACAGTTATTTGCAATAGGACTCGAGTGAGTTTTAAGAAGAGACTTCTCAAAGAGAGAG
+CCGCTTTGATCTCCAGATCACTTCACAGCCCATTAAGACTTTTCCTTTTTGACACACGAG
+TAGGGCGATATTTTGTGCTTATCCGAGAAC