Mallard/
Mallard/bin/
Mallard/docs/
Mallard/docs/Images/
Mallard/docs/Topics/
Mallard/docs/Topics/Tutorial/
Mallard/docs/Topics/Tutorial/.xvpics/
Mallard/docs/Topics/Tutorial/Example1/
Mallard/docs/Topics/Tutorial/Example1/.xvpics/
Mallard/docs/Topics/Tutorial/Example1/Data/
Mallard/docs/api/
Mallard/docs/api/kea/
Mallard/docs/api/kea/programs/
Mallard/docs/api/kea/programs/mallard/
Mallard/docs/api/kea/programs/mallard/algorithm/
Mallard/docs/api/kea/programs/mallard/alignmentPanel/
Mallard/docs/api/kea/programs/mallard/dotMatrixPanel/
Mallard/docs/api/kea/programs/mallard/graph/
Mallard/docs/api/kea/programs/mallard/pintailPanel/
Mallard/docs/api/kea/programs/mallard/sequencePanels/
Mallard/docs/api/kea/programs/mallard/sequencePanels/bad/
Mallard/docs/api/kea/programs/mallard/sequenceSummaryPanel/
Mallard/docs/api/resources/
Mallard/examples/
Mallard/src/
Mallard/src/kea/
Mallard/src/kea/programs/
Mallard/src/kea/programs/mallard/
Mallard/src/kea/programs/mallard/algorithm/
Mallard/src/kea/programs/mallard/alignmentPanel/
Mallard/src/kea/programs/mallard/dotMatrixPanel/
Mallard/src/kea/programs/mallard/graph/
Mallard/src/kea/programs/mallard/help/
Mallard/src/kea/programs/mallard/help/Images/
Mallard/src/kea/programs/mallard/help/Topics/
Mallard/src/kea/programs/mallard/help/Topics/Tutorial/
Mallard/src/kea/programs/mallard/help/Topics/Tutorial/.xvpics/
Mallard/src/kea/programs/mallard/help/Topics/Tutorial/Example1/
Mallard/src/kea/programs/mallard/help/Topics/Tutorial/Example1/.xvpics/
Mallard/src/kea/programs/mallard/help/Topics/Tutorial/Example1/Data/
Mallard/src/kea/programs/mallard/pintailPanel/
Mallard/src/kea/programs/mallard/sequencePanels/
Mallard/src/kea/programs/mallard/sequencePanels/bad/
Mallard/src/kea/programs/mallard/sequenceSummaryPanel/
Mallard/Mallard.jar
Mallard/README.txt
Mallard/bin/Kea.jar
Mallard/bin/Mallard.jar
Mallard/bin/OrientationChecker.jar
Mallard/bin/Pintail.jar
Mallard/bin/ThirdParty.jar
Mallard/bin/jh.jar
Mallard/docs/Images/AcinasHistogram.png
Mallard/docs/Images/FRaw1.png
Mallard/docs/Images/FSmoothed1.png
Mallard/docs/Images/HaloarculaMarismortui_Pintail_plot.png
Mallard/docs/Images/Halosimplex_carlsbadense_Pintail_plot.png
Mallard/docs/Images/Natrinema_Pintail_plot.png
Mallard/docs/Images/Ochrobactrum_intermedium_Pintail_plot.png
Mallard/docs/Images/Pintail_AY354817_vs_AY344418.png
Mallard/docs/Images/Pintail_AY354817_vs_AY697909.png
Mallard/docs/Images/Pintail_AY354817_vs_AY794179.png
Mallard/docs/Images/Pintail_AY354817edited1_vs_AY697909_window100.png
Mallard/docs/Images/Pintail_AY354817edited2_vs_AY697909_window100.png
Mallard/docs/Images/Pintail_AY354817unedited_vs_AY697909_window100.png
Mallard/docs/Images/Pintail_AY794179_vs_AY697909.png
Mallard/docs/Images/Pintail_WinXP_screenshot.png
Mallard/docs/Images/Pintail_WinXP_screenshot_500px.png
Mallard/docs/Images/Pintail_profile1.png
Mallard/docs/Images/Pintail_profile10.png
Mallard/docs/Images/Pintail_profile10_200px.png
Mallard/docs/Images/Pintail_profile11.png
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Mallard/docs/Images/Pintail_profile12.png
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Mallard/docs/Images/Pintail_profile13.png
Mallard/docs/Images/Pintail_profile13_200px.png
Mallard/docs/Images/Pintail_profile14.png
Mallard/docs/Images/Pintail_profile14_200px.png
Mallard/docs/Images/Pintail_profile15.png
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Mallard/docs/Images/Pintail_profile16.png
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Mallard/docs/Images/Pintail_profile17.png
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Mallard/docs/Images/Pintail_profile18.png
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Mallard/docs/Images/Pintail_profile1_200px.png
Mallard/docs/Images/Pintail_profile2.png
Mallard/docs/Images/Pintail_profile2_200px.png
Mallard/docs/Images/Pintail_profile3.png
Mallard/docs/Images/Pintail_profile3_200px.png
Mallard/docs/Images/Pintail_profile4.png
Mallard/docs/Images/Pintail_profile4_200px.png
Mallard/docs/Images/Pintail_profile5.png
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Mallard/docs/Images/Pintail_profile6.png
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Mallard/docs/Images/Pintail_profile7.png
Mallard/docs/Images/Pintail_profile7_200px.png
Mallard/docs/Images/Pintail_profile8.png
Mallard/docs/Images/Pintail_profile8_200px.png
Mallard/docs/Images/Pintail_profile9.png
Mallard/docs/Images/Pintail_profile9_200px.png
Mallard/docs/Images/QRaw1.png
Mallard/docs/Images/QSmoothed1.png
Mallard/docs/Images/Thermoanaerobacter_tengcongensis_Pintail_plot.png
Mallard/docs/Images/Thermobispora_bispora_Pintail_plot.png
Mallard/docs/Images/Thermomonospora_chromogena_pintail_plot.png
Mallard/docs/Images/antisense.gif
Mallard/docs/Images/badSequencePanel_detail.png
Mallard/docs/Images/cut_off_line_fig_2a.png
Mallard/docs/Images/cut_off_line_fig_2b.png
Mallard/docs/Images/cut_off_line_fig_2c.png
Mallard/docs/Images/formula1.png
Mallard/docs/Images/formula2.png
Mallard/docs/Images/hypervariableRegions.png
Mallard/docs/Images/hypervariableRegions1.png
Mallard/docs/Images/iconLarge.gif
Mallard/docs/Imag