Slightly different taxonomy annotations with 12S example #60
Description
After getting Anacapa to work through Singularity and running the 12S example, I seem to get some small differences between my output and the expected output, see below. For a reproducible example, please see #59. I was wondering what could be the cause of this discrepancy? Is it likely to be the result of different versions of Anacapa / software, or only of the 12S database used? I made use of the 12S_Oct2019.zip database. Judging by the diff below, it seems that my output contains more taxa.
Check which files are different
# Compare my output with the expected output
OUT="${ANACAPA_PATH}/Example_data/12S_example_anacapa_QC_dada2_and_BLCA_classifier/12S_time_test/12S"
EXP="${ANACAPA_PATH}/Example_data/12S_example_anacapa_QC_dada2_and_BLCA_classifier/Anacapa_test_data_expected_output_after_classifier/12S"
git diff --no-index --stat ${EXP} ${OUT}
.../12S_taxonomy_tables/12S_ASV_taxonomy_brief.txt | 32 +-
.../12S_ASV_taxonomy_detailed.txt | 32 +-
.../100/12S_ASV_raw_taxonomy_100.txt | 8 +-
.../100/12S_ASV_sum_by_taxonomy_100.txt | 6 +-
.../40/12S_ASV_raw_taxonomy_40.txt | 6 +-
.../40/12S_ASV_sum_by_taxonomy_40.txt | 4 +-
.../50/12S_ASV_raw_taxonomy_50.txt | 4 +-
.../50/12S_ASV_sum_by_taxonomy_50.txt | 2 +-
.../60/12S_ASV_raw_taxonomy_60.txt | 4 +-
.../60/12S_ASV_sum_by_taxonomy_60.txt | 2 +-
.../70/12S_ASV_raw_taxonomy_70.txt | 4 +-
.../70/12S_ASV_sum_by_taxonomy_70.txt | 2 +-
.../80/12S_ASV_raw_taxonomy_80.txt | 4 +-
.../80/12S_ASV_sum_by_taxonomy_80.txt | 2 +-
.../90/12S_ASV_raw_taxonomy_90.txt | 4 +-
.../90/12S_ASV_sum_by_taxonomy_90.txt | 2 +-
.../95/12S_ASV_raw_taxonomy_95.txt | 4 +-
.../95/12S_ASV_sum_by_taxonomy_95.txt | 2 +-
.../12S/12Sbowtie2_out/12S_bowtie2_all.sam | 702 +++++++++++----------
.../12Sbowtie2_out/12S_bowtie2_all.sam.blca.out | 32 +-
.../single_read_forward_12S_end_to_end.sam | 33 +-
.../single_read_forward_12S_local.sam | 118 ++--
.../single_read_merged_12S_end_to_end.sam | 351 ++++++-----
.../single_read_merged_12S_local.sam | 200 +++---
24 files changed, 826 insertions(+), 734 deletions(-)
Compare the brief tanomy tables
# Compare the Brief taxonomy tables
diff ${EXP}/12S_taxonomy_tables/12S_ASV_taxonomy_brief.txt ${OUT}//12S_taxonomy_tables/12S_ASV_taxonomy_brief.txt
4,9c4,9
< forward_12S_3 1 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Pomacentridae;genus:Hypsypops;species:Hypsypops rubicundus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; FJ616348.1;FJ616297.1;FJ616291.1;AF285932.1;JQ707048.1;FJ616360.1;JN935815.1;LC091986.1;LC069643.1
< forward_12S_4 1 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Pomacentridae;genus:Hypsypops;species:Hypsypops rubicundus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; FJ616348.1;FJ616291.1;FJ616360.1;FJ616297.1
< forward_12S_5 0 1 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Oxyjulis;species:Oxyjulis californica; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:98.0;species:98.0; AY279632.1;KY815300.1;LC104651.1;LC146271.1;AJ810137.1;AY279611.1;KY421797.1;AJ810136.1;KY815304.1;AY279589.1;AB974580.1;AY279628.1;AB972165.1;KY815292.1;LC021281.1;AY279590.1;AY279635.1;LC037152.1
< forward_12S_6 0 1 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Clupeiformes;family:Engraulidae;genus:Engraulis;species:Engraulis mordax; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; LC091576.1;LC091575.1;LC020920.1;AF417342.1;AB040676.1;KF765500.2;AP009137.1
< forward_12S_7 0 1 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Pleuronectiformes;family:Paralichthyidae;genus:Citharichthys;species:Citharichthys stigmaeus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:98.75;species:91.6666666667; LC049675.1;LC092080.1;LC145943.1;AF488499.1;AF488502.1
< merged_12S_1 435 190 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Lutjaniformes;family:Lutjanidae;genus:Scombrops;species:Microcanthus strigatus; superkingdom:100.0;phylum:100.0;class:100.0;order:36.3857142857;family:36.3857142857;genus:24.4357142857;species:16.6666666667; LC146222.1;LC146225.1;KC136483.1;EF616892.1;LC036796.1;LC036741.1;AB972198.1;AP006009.1;LC036780.1;LC036779.1;LC006297.3;LC208773.1;AB378750.1;LC069537.1;AB378749.1;FJ171339.1;LC021264.1;KX641477.1;AB128870.1;KC136457.1;JQ010988.1;JQ010987.1;LC036864.1;AB236128.1;AB236130.1;LC021271.1;AB236129.1;AB214535.1;KM658974.1;LC069635.1;LC069607.1;LC069633.1;KC136370.1;LC092033.1;AP017437.1;LC278180.1;LC026623.1;AP006025.1;LC037134.1;KC136536.1;LC278257.1;AP006814.1;LC104688.1;LC104689.1;LC036807.1;KC136395.1;KC136577.1;LC049802.1;LC146329.1;AY700235.1;LC278258.1;AF294451.1;AP017438.1;LC021167.1;KT309078.1;LC021166.1;KR363149.1
---
> forward_12S_3 1 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Pomacentridae;genus:Hypsypops;species:Hypsypops rubicundus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; FJ616348.1;FJ616297.1;FJ616291.1;JQ707048.1;AF285932.1;JN935815.1;FJ616360.1;LC091986.1;LC499326.1;LC069643.1
> forward_12S_4 1 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Pomacentridae;genus:Hypsypops;species:Hypsypops rubicundus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; FJ616348.1;FJ616291.1;FJ616297.1;FJ616360.1
> forward_12S_5 0 1 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Oxyjulis;species:Oxyjulis californica; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:98.0;species:98.0; AY279632.1;KY815300.1;LC104651.1;AJ810137.1;KY421797.1;AY279611.1;LC146271.1;AJ810136.1;KY815304.1;AB974580.1;LC499368.1;AY279589.1;AY279628.1;AB972165.1;KY815292.1;AY279590.1;LC021281.1;AY279635.1;LC037152.1
> forward_12S_6 0 1 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Clupeiformes;family:Engraulidae;genus:Engraulis;species:Engraulis mordax; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; NC_041097.1;LC091575.1;LC091576.1;LC468860.1;AB040676.1;AF417342.1;AP017957.1;LC499587.1;LC385201.1;LC468861.1;LC020920.1;KF765500.2;LC340033.1;AP009137.1
> forward_12S_7 0 1 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Pleuronectiformes;family:Paralichthyidae;genus:Citharichthys;species:Citharichthys stigmaeus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:99.6666666667;species:92.5; LC092080.1;LC049675.1;LC145943.1;AF488499.1;AF488502.1
> merged_12S_1 435 190 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Centrarchiformes;family:Lutjanidae;genus:Scombrops;species:Microcanthus strigatus; superkingdom:100.0;phylum:100.0;class:100.0;order:42.7643162393;family:22.1083333333;genus:20.8132478632;species:20.3205128205; LC146225.1;EF616892.1;KC136483.1;LC036796.1;AP006009.1;LC036741.1;LC421698.1;AB938146.1;LC500739.1;LC208773.1;LC036779.1;LC036780.1;DQ872160.1;AB972189.1;AB739063.1;LC474184.1;MF621710.1;AB378750.1;AB378749.1;FJ171339.1;LC146230.1;LC055190.1;MH248214.1;KX373635.1;KX641477.1;JQ010988.1;LC036864.1;LC021266.1;AB236129.1;LC021271.1;AB236128.1;AB214535.1;AB236130.1;KM282429.1;MH248193.1;KC136370.1;AP017437.1;LC092033.1;LC026623.1;LC037134.1;LC340157.1;KC136536.1;AF055600.1;LC499379.1;AP006814.1;LC104689.1;KC136517.1;LC104688.1;MG748713.1;MH248192.1;LC340159.1;LC036807.1;KC136395.1;KC136577.1;LC499334.1;LC049802.1;KR152255.1;KC136518.1;KR152252.1;AB972222.1;LC499336.1;LC458333.1;LC421748.1;LC278255.1;LC278252.1;KT337336.1;KR363149.1;KT309078.1;LC499366.1;LC021167.1;LC474187.1;LC021166.1;AP017438.1
12,15c12,15
< merged_12S_4 104 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Oxyjulis;species:Oxyjulis californica; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:90.2;species:90.2; AY279632.1;KY815300.1;AY279611.1;KY421797.1;AJ810137.1;LC146271.1;LC104651.1;AJ810136.1;KY815304.1;AY279589.1;AB974580.1;AB972165.1;LC021281.1;AY279590.1
< merged_12S_5 0 99 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Oxyjulis;species:Oxyjulis californica; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:99.5;species:99.5; AY279632.1;KY815300.1;LC146271.1;KY421797.1;AY279611.1;AJ810137.1;LC104651.1;AJ810136.1;KY815304.1;AB974580.1;AY279589.1;AY279628.1;KY815292.1;AY279635.1;AB972165.1;LC037152.1;AY279590.1;LC021281.1
< merged_12S_6 31 43 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Clupeiformes;family:Engraulidae;genus:Engraulis;species:Engraulis mordax; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; LC091575.1;LC091576.1;KF765500.2;AF417342.1;AB040676.1;LC020920.1;AP009137.1;AP011557.1
< merged_12S_7 37 26 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Centrarchiformes;family:Kyphosidae;genus:Girella;species:Girella simplicidens; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:77.0; KC136553.1;KC136546.1;KC136395.1;KC136577.1;KC136536.1;AB236128.1;AB214535.1;LC021271.1;AB236130.1;AB236129.1;KC136370.1;AB233478.1;LC278022.1;LC037029.1;AB233477.1;LC278153.1;AB208649.1;AB233476.1;AB233475.1;KC136555.1;LC037030.1;LC278154.1;AB233479.1;KC136477.1;AB233481.1;AB972232.1;AB233485.1;AB233484.1;AP011060.1;AB233483.1;AB233482.1;AB208648.1;AB233489.1;AB233488.1;AB233491.1;AB233486.1;AB233480.1;AB233490.1;AB233487.1
---
> merged_12S_4 104 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Oxyjulis;species:Oxyjulis californica; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:90.2;species:90.2; AY279632.1;KY815300.1;LC146271.1;AY279611.1;KY421797.1;AJ810137.1;LC104651.1;AJ810136.1;KY815304.1;LC499368.1;AB974580.1;AY279589.1;AB972165.1;AY279590.1;LC021281.1
> merged_12S_5 0 99 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Oxyjulis;species:Oxyjulis californica; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:99.0;species:99.0; AY279632.1;KY815300.1;KY421797.1;AJ810137.1;LC146271.1;AY279611.1;LC104651.1;AJ810136.1;KY815304.1;LC499368.1;AB974580.1;AY279589.1;AY279628.1;KY815292.1;AY279635.1;AB972165.1;LC037152.1;LC021281.1;AY279590.1
> merged_12S_6 31 43 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Clupeiformes;family:Engraulidae;genus:Engraulis;species:Engraulis mordax; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; LC091575.1;NC_041097.1;LC091576.1;AP017957.1;LC468860.1;LC020920.1;LC385201.1;LC468861.1;AB040676.1;KF765500.2;LC499587.1;AF417342.1;LC340033.1;AP009137.1;AP011557.1
> merged_12S_7 37 26 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Centrarchiformes;family:Kyphosidae;genus:Girella;species:Girella simplicidens; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:76.9166666667; KC136553.1;KC136546.1;KC136395.1;KC136536.1;KC136577.1;AB214535.1;LC021271.1;KC136370.1;AB236129.1;AB236128.1;AB236130.1;AB208649.1;AB233477.1;LC278154.1;LC037029.1;LC037030.1;AB233478.1;KC136555.1;LC492400.1;LC278022.1;LC385204.1;AB233476.1;AB233475.1;LC278153.1;LC458160.1;AB233482.1;AB233489.1;AP011060.1;AB233488.1;AB233491.1;AB233483.1;LC421696.1;AB233481.1;AB233485.1;KC136477.1;AB972232.1;LC492401.1;AB208648.1;AB233484.1;AB233479.1;AB233480.1;AB233486.1;AB233490.1;AB233487.1
17,21c17,21
< merged_12S_9 0 51 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Pleuronectiformes;family:Paralichthyidae;genus:Citharichthys;species:Citharichthys stigmaeus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:98.6666666667; LC092080.1;LC049675.1;LC145943.1;AF488499.1;AF488502.1
< merged_12S_10 0 44 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Centrarchiformes;family:Kyphosidae;genus:Medialuna;species:Medialuna californiensis; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; KC136408.1;AP011062.1;LC037028.1;KC136456.1;KC136474.1;KC136544.1;KC136573.1;KC136377.1;KC136516.1;KC136375.1;KC136428.1;KC136398.1;LC037025.1;KC136418.1;KC136540.1;KC136499.1;KC136382.1;KC136362.1;KC136451.1;KC136568.1;KC136550.1;KC136404.1;KC136505.1;KC136441.1;KC136503.1;LC037027.1;KC136407.1;KC136378.1;KC136444.1;KC136450.1;KC136470.1;KC136480.1;KC136496.1;KC136368.1;KC136520.1;KC136386.1;KC136500.1;KC136488.1;KC136365.1;KC136463.1;KC136529.1;KC136491.1;AB972197.1;KC136565.1;AP011061.1;KC136453.1;KC136507.1;KC136535.1;KC136538.1;KC136464.1;KC136506.1;LC037024.1;KC136414.1;KC136405.1;KC136393.1;KC136564.1;KC136442.1;KC136557.1;KC136438.1;KC136548.1;KC136559.1;KC136361.1;KC136448.1;KC136479.1;KC136384.1;KC136560.1;KC136383.1;KC136423.1;KC136399.1;KC136381.1;KC136436.1;KC136437.1;KC136409.1;KC136411.1;KC136416.1;EF616895.1;KC136417.1;KC136574.1;KC136481.1;KC136521.1;KC136523.1;KC136433.1;KC136492.1;KC136524.1;KC136455.1;KC136511.1;KC136533.1;KC136426.1;KC136558.1;KC136473.1;KC136466.1;KC136476.1;KC136374.1;KC136439.1;KC136522.1;KC136532.1;KC136403.1;KC136430.1;KC136379.1;KC136364.1
< merged_12S_11 35 8 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Semicossyphus;species:Semicossyphus pulcher; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; AY279644.1;EU601226.1;AB974611.1;KY815247.1
< merged_12S_12 0 38 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Pomacentridae;genus:Chromis;species:Chromis punctipinnis; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; FJ616322.1;FJ616317.1;JQ707030.1;JQ707036.1;FJ616328.1;AB969956.1;FJ616320.1;LC104634.1;FJ616290.1;AF285921.1;JN935809.1;FJ616295.1;LC104618.1;KF374999.1;FJ616313.1;AP006016.1;FJ616326.1;LC069664.1;AF285920.1;AB969974.1;FJ616327.1;LC104613.1;FJ616293.1;LC069660.1;AB969957.1;JQ707032.1;AB974585.1;LC069650.1;AY279570.1;LC069665.1;LC104614.1;FJ616296.1;JQ707028.1;LC021279.1;JQ707034.1;FJ616289.1;FJ616298.1;LC104616.1;AF285926.1;FJ616314.1;LC091980.1;LC069651.1;FJ616321.1;JN935818.1;FJ616316.1;LC146253.1;FJ616294.1;FJ616292.1;LC146252.1;FJ616311.1;AY098623.1;FJ616297.1;FJ616318.1;JQ707035.1;LC104619.1;FJ616319.1;FJ616315.1;LC104637.1;LC069656.1;JQ707031.1;LC069597.1;KU531434.1;LC091970.1;JN628854.1;FJ616340.1;KU140665.1;KX631426.1;KT277287.1;KT166981.1;JN628852.1;JN628861.1;JN628858.1;KX595333.1;KT943516.1;KT221043.1;HE961974.1;AY597335.1;FJ616350.1;KM658974.1
< merged_12S_13 0 35 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Atheriniformes;family:Atherinopsidae;genus:Odontesthes;species:Odontesthes incisa; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:37.9928571429; GQ352653.1;GQ352655.1;GQ352652.1;KF791036.1;GQ352654.1;GQ352659.1;AB370894.1;GQ352656.1;GQ352658.1;GQ352657.1;GQ352651.1
---
> merged_12S_9 0 51 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Pleuronectiformes;family:Paralichthyidae;genus:Citharichthys;species:Citharichthys stigmaeus; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; LC092080.1;LC049675.1;LC145943.1;AF488499.1;AF488502.1
> merged_12S_10 0 44 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Centrarchiformes;family:Kyphosidae;genus:Medialuna;species:Medialuna californiensis; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; KC136408.1;LC037028.1;AP011062.1;KC136499.1;KC136531.1;KC136568.1;KC136543.1;KC136428.1;KC136422.1;KC136402.1;KC136573.1;KC136505.1;KC136519.1;KC136540.1;KC136377.1;KC136375.1;KC136451.1;KC136474.1;KC136544.1;LC037025.1;KC136418.1;KC136463.1;KC136542.1;KC136480.1;KC136488.1;KC136525.1;KC136496.1;KC136520.1;KC136444.1;KC136512.1;KC136427.1;KC136527.1;KC136378.1;KC136500.1;KC136380.1;LC037026.1;KC136386.1;KC136545.1;KC136470.1;KC136529.1;KC136391.1;KC136400.1;AP011061.1;KC136538.1;AB972197.1;KC136526.1;KC136491.1;KC136461.1;KC136565.1;KC136436.1;KC136537.1;KC136572.1;KC136433.1;KC136502.1;KC136455.1;KC136372.1;KC136446.1;KC136574.1;EF616895.1;KC136445.1;KC136487.1;KC136523.1;KC136405.1;KC136569.1;KC136511.1;KC136533.1;KC136411.1;KC136417.1;KC136557.1;KC136447.1;KC136489.1;KC136414.1;AY279561.1;KC136559.1;KC136384.1;KC136541.1;KC136492.1;KC136506.1;KC136369.1;KC136399.1;KC136383.1;KC136448.1;KC136381.1;KC136554.1;KC136481.1;KC136479.1;KC136548.1;KC136468.1;KC136524.1;KC136409.1;KC136514.1;KC136423.1;KC136421.1;KC136442.1;AP014538.1;KC136476.1;KC136460.1;KC136532.1;KC136556.1;KC136439.1
> merged_12S_11 35 8 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Labriformes;family:Labridae;genus:Semicossyphus;species:Semicossyphus pulcher; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:100.0;species:100.0; AY279644.1;EU601226.1;LC499589.1;AB974611.1;LC340201.1;LC499309.1;KY815247.1
> merged_12S_12 0 38 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Pomacentridae;genus:Chromis;species:Chromis punctipinnis; superkingdom:100.0;phylum:100.0;class:100.0;order:99.0;family:100.0;genus:100.0;species:99.0; FJ616322.1;FJ616317.1;JQ707030.1;JQ707036.1;FJ616290.1;FJ616320.1;LC474196.1;AB969956.1;LC474195.1;FJ616328.1;LC104634.1;FJ616313.1;LC340187.1;AP006016.1;LC499559.1;FJ616295.1;KF374999.1;LC500710.1;JN935809.1;FJ616326.1;LC104618.1;LC069664.1;AF285921.1;AB969957.1;AB969974.1;AY279570.1;FJ616327.1;AB974585.1;FJ616293.1;LC069660.1;LC104613.1;LC499560.1;LC421703.1;AF285920.1;LC069665.1;JQ707032.1;LC069650.1;LC499303.1;NC_041192.1;LC104614.1;MK100717.1;LC458258.1;JQ707028.1;LC021279.1;FJ616296.1;JQ707034.1;FJ616298.1;FJ616289.1;LC104616.1;AF285926.1;LC091980.1;FJ616314.1;FJ616321.1;LC069651.1;FJ616316.1;JN935818.1;LC146253.1;FJ616294.1;LC146252.1;FJ616292.1;LC499305.1;MH248164.1;AY098623.1;FJ616297.1;FJ616311.1;JQ707035.1;FJ616318.1;LC104619.1;FJ616319.1;FJ616315.1;LC385286.1;LC069656.1;JQ707031.1;KU531434.1;LC069597.1;NC_031181.1;LC091970.1;JN628861.1;JN628858.1;KU140665.1;JN628854.1;KT277287.1;KT943516.1;KT166981.1;JN628852.1;KX631426.1;FJ616340.1;HE961974.1;KX595333.1;KT221043.1;MG603675.1;AY597335.1;NC_037019.1;FJ616350.1;NC_037020.1;KM658974.1;MG603674.1
> merged_12S_13 0 35 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:Atheriniformes;family:Atherinopsidae;genus:Leuresthes;species:Leuresthes tenuis; superkingdom:100.0;phylum:100.0;class:100.0;order:100.0;family:100.0;genus:73.0927350427;species:73.0927350427; MN181432.1;NC_044649.1;KF791036.1;GQ352655.1;GQ352653.1;GQ352652.1;GQ352654.1;GQ352659.1;GQ352656.1;AB370894.1;GQ352657.1;GQ352658.1;GQ352651.1
23c23
< merged_12S_15 16 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Embiotocidae;genus:Rhacochilus;species:Rhacochilus vacca; superkingdom:100.0;phylum:100.0;class:100.0;order:31.6;family:100.0;genus:94.8;species:94.8; LC091972.1;AY279572.1;LC091971.1;LC091976.1;LC091975.1;AF285918.1;AY279573.1;KU530212.1;LC091978.1;LC104608.1;LC091977.1;FJ616394.1;AP009128.1;LC091974.1;LC091973.1;AB969917.1;AP009129.1;JN125224.1;JN125222.1;AY279571.1;JN125226.1;JN125223.1;JN125227.1;AB969916.1;JN125225.1
---
> merged_12S_15 16 0 superkingdom:Eukaryota;phylum:Chordata;class:Actinopteri;order:NA;family:Embiotocidae;genus:Rhacochilus;species:Rhacochilus vacca; superkingdom:100.0;phylum:100.0;class:100.0;order:31.1666666667;family:100.0;genus:93.5;species:93.5; AY279572.1;LC091972.1;LC091971.1;LC091975.1;LC091976.1;AY279573.1;AF285918.1;KU530212.1;LC091977.1;FJ616394.1;AP009128.1;LC091978.1;LC104608.1;LC091973.1;LC091974.1;AB969917.1;AP009129.1;JN125222.1;JN125224.1;AY279571.1;JN125227.1;JN125223.1;JN125226.1;AB969916.1;JN125225.1