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HomepageWorld Haplogroup & Haplo-I Subclade Predictor
Instructions, FAQ's, and Version History
Jim Cullen

Welcome to the World Haplogroup & Haplo-I Subclade Predictor Help Page. Currently the instructions for using the Predictor are incomplete. Full instructions for using the COMET utility are included below the Predictor instructions. FAQ's will be added in the future and the Revision History is located at the bottom of the page.

World Haplogroup & Haplo-I Subclade Predictor Instructions:

  • The World Haplogroup & Haplo-I Subclade Predictor attempts to predict your haplogroup or Haplo-I subclade based on your Y-STR DNA marker data. A minimum of three markers are required to run the Predictor. You may enter your marker repeats by using the dropdown boxes in the Predictor itself or you may use the COMET which allows cut & paste entry of the Y-STR data for markers in a custom order. See instructions below for the operation of the COMET utility. The Predictor operates in one of two modes: Haplogroup Mode and Haplo-I Subclade Mode. This corresponds to the two buttons for those functions; the 'Haplogroup Prediction' button and the 'Haplo-I Subclade Prediction' button.

  • Haplogroup Mode: The Haplogroup Mode uses only the markers in the first three panels of FTDNA's standard marker sets; this would be the first 37 markers or DYS393 through DYS438. There are three rows of dropdown selection boxes for these markers. There is also a counter below the dropdown boxes labelled 'Markers Selected in Panels 1-3' that tells you how many markers you have selected in those first three panels. Note that if you have entered values into DYS576, DYS570, CDYa, or CDYb, then those markers are NOT counted since they are not used by the Predictor in any way. If you completely fill in the first 37 markers, then the counter will register 33 markers selected since the four non-utilized markers are not counted. Haplogroup Mode predicts, based on the first three panels of markers, your Haplogroup or Subhaplogroup. Remember a minimum of three markers is required. You must perform a Haplogroup Prediction before you are allowed to perform a Haplo-I Subclade prediction - and - your Haplogroup Prediction must predict your haplotype to be within Haplogroup 'I' before the 'Haplo-I Subclade Prediction' button will function. For compatible browsers, the 'Haplogroup Prediction' and 'Haplo-I Subclade Prediction' buttons will light up green when they are active.

  • After you have clicked the 'Perform Haplogroup Prediction' button, your results are displayed in the text area just below the buttons. The predicted haplogroups/subhaplogroups are given along with their probabilities in percent. You may at that time add or remove markers in the Predictor and predict your haplogroup again - as many times as you like. To restart the Predictor from scratch, click the 'Reset Predictor' button.

  • Again - DYS 576, DYS570, CDYa, and CDYb are not utilized in either Haplogroup Mode or Subclade Mode. The 'Markers Selected Panels 1-3' counter and 'Markers Selected Panels 1-4' counter will not increment when you enter a value for these Y-STR markers. These four markers are currently not used in any of the prediction algorithms; CDYa and CDYb likely never will be. It is possible that DYS576 and DYS570 may be used in the prediction algorithm in the future but they will have no great impact on prediction results. They simply mutate too fast to be of much use in discriminating between haplogroups or even subclades.

  • Instructions in progress...

C.O.M.E.T Instructions:

  • COMET is a software tool to implement custom order entry of Y-STR DNA markers into the Haplogroup & Haplo-'I' Subclade Predictor. Not everyone maintains their databases with their markers in standard FTDNA order and so COMET allows the order of markers pasted into the data window to be passed on to the Predictor in your custom order. Another utility allows your custom marker order to be portable so that it does not need to be specified on your next visit.

  • COMET consists of three tool areas; marker checks, panel buttons, and data windows. At the top of COMET is the array of marker checkboxes or checks. These will toggle individual markers into or out of your custom marker list. There are also buttons for toggling entire panels of markers on or off. These panel buttons correspond with FTDNA's Panels of Y-DNA STR markers. To the right of the 'Add Panel 4' button is the 'Clear Custom List' button which clears all checks and empties the contents of all windows in COMET. This also resets the Predictor in anticipation of new data.

  • There is no need to create a custom order marker list if your data is already in standard FTDNA order - the order the Predictor uses them in. As long as you are using FTDNA standard order and marker convention, you can simply paste your data into COMET's yellow data window, click the 'Submit My Marker Data to the Predictor' button, and the markers will be filled into the Predictor sequentially beginning with DYS393.

  • You may toggle individual markers, on or off in any order, in combination with the panel buttons. Experiment with the controls; they have been designed to be very flexible to meet everyone's needs. Note: Your chosen markers are displayed in the blue text area IN EXACTLY THE ORDER YOU ENTERED THEM. Here is an example: Suppose you want to enter all Panel 1 markers except for DYS439. Click the 'Clear Custom List' button. Now click the DYS439 check and you should see 439 show up in the blue marker window. Now click the 'Add Panel 1' button. Did you see what happened? The panel buttons TOGGLE all markers in the panels. Now we see all markers in Panel 1 checked with the exception of DYS439. Now let's say you decided you made a mistake and want to include DYS439 back in again. When you click the 439 check note that 439 is added to the END of the list. Markers are added in exactly the order that you entered them. Deleted markers are deleted from the list and added markers are added on to the end of the list.

  • When your customized marker list is completed, the display in the blue custom marker list window should match what is displayed across the top of your spreadsheet or whatever document it was that your data was copied from. Data can be copied from YSearch, documents, spreadsheets, webpages, wherever you want, as long as it consists of marker data only. Now simply paste your marker data into the yellow data window and click 'Submit My Marker Data to the Predictor' button. Your marker data will be automatically entered into the correct marker dropdown boxes in the Predictor above. You may if you wish edit your data in the Predictor now by making use of its dropdown boxes. Note that markers you have changed in the Predictor are NOT reflected in the marker entry tool. If you later resubmit data to the Predictor from COMET, remember that COMET resets the Predictor to a clean slate before resubmitting the data.

  • It doesn't matter what the separator characters are in your marker data as long as there is just one separator character between each data point. Multiple separator characters are interpreted as markers with no data and are skipped. Please use 999 repeats to indicate a 'null' value for a marker in your data, or leave it blank and edit the marker to 'null' in the Predictor itself.

  • Check the entered results carefully for errors! In the case of a fault on a marker, the Predictor will simply skip over it. If you unintentionally have two separator characters between two data points, the Predictor will fall out of step and sporadic data entry will result.

  • The COMET TAIL: Every COMET has a TAIL - and so does this one. The COMET's TAIL in this case is a small bit of text that remembers your custom marker order. Suppose you use the same database every time you run the Predictor and your database marker order does not match the Predictor's FTDNA standard order. This means you would have to reconstruct your custom marker order every time you visited the Predictor page. The COMET's TAIL solves this problem. Working with the COMET TAIL is just like working with marker data except the TAIL is marker ORDER data.

  • Creating your COMET TAIL: First, build your custom marker order list so that your markers are properly displayed in the blue custom marker list window. Now, type a single @ 'each at' symbol in the yellow data window ( do NOT hit enter ) and click the 'Submit My Marker Data to the Predictor' button. Notice that the @ symbol disappears from the yellow data window and some odd text appears in the blue custom marker list window. The odd text is the COMET TAIL and will look something like this: @(12,3,7,5,4,2,6); which you should be able to copy and save somewhere safe, perhaps within your database. Save the whole string, from the 'each at' sign to the semicolon at the end. You can continue working now, your custom marker order is still active. Just looking at your TAIL won't disturb any work in progress.

  • Using your COMET TAIL: To get your TAIL working the next time you visit, paste your TAIL in COMET's yellow data window and click the 'Submit My Marker Data to the Predictor' button which will now function as a 'Submit My TAIL to the Predictor' button. The TAIL will disappear from the yellow data window and your custom-order markers will 'magically' appear in the blue marker list window. Now you're ready to paste your data and work as you normally would. The marker data you enter now will be lined up with the custom-order marker list stored in your COMET TAIL and the appropriate dropdown boxes in the Predictor will be automatically filled with your data.

  • Oh, and if you happen to lose your own TAIL, please don't ask me to help you look for it. As helpful as I'd like to be, I'm afraid you're on your own with that one! :-)

Revision History:

  • v0.93a: Beta Release Apr 26, 2008. Added quite a bit of interface tweaking and some prediction bug-fixes. Internal algorithm modified to accomodate a soon-to-come feature allowing identification of off-modal slow mutating markers. This has also been done in anticipation of DYS576 and DYS570 possibly being added to the list of 'usable' markers. Additions of modals. Added J2-M205. Better resolution for Haplo-Q ( by adding five more modal sets ) to reduce predictions of Haplo-Q for outlier R1b haplotypes. Also added new R1b modals for better R1b resolution, testing for R1b-S21* (old R1b1c9*) specifically, R1b-S26 (old R1b1c9a), and R1b-S28 (old R1b1c10). Let me know how the Predictor does with the R1b-S21* vs R1b-S21*-Frisian since the 'Frisian' tag should not actually be restricted to S21*. Now using 86 Haplogroups + 56 I-Subclades = 142 modal haplotypes.

  • v0.92: Beta Release Apr 20, 2008. Added the COMET utility or Custom Order Marker Entry Tool. COMET is a software tool to implement custom-order cut-and-paste entry of Y-STR DNA markers into the Haplogroup & Haplo-'I' Subclade Predictor. COMET is now v1.2 and includes a COMET TAIL to save your custom order marker list so you don't have to set it up every visit. Modification of the layout of the Predictor window. Additional R1b modal haplotypes added. The Predictor is currently working with 74 modal haplotypes representing the world's major haplogroups / subhaplogroups defined to 37 markers, and 56 Haplo-I subclades defined to 67 markers, for a total of 130 modal haplotypes in use for comparison to your own Y-DNA STR signature. Internal algorithm modified to accomodate a soon-to-come feature allowing identification of off-modal slow mutating markers. This modification will not in any way alter the current testing algorithm or the observed results.

  • v0.91: Beta Release Apr 16, 2008. This version addressed a couple issues. First is the removal of Haplo-I subclades from 'Haplogroup Mode' ( completed ). From v0.91 on only the main branches of Haplo-I will appear: I1a-M253, I1b-P37.2, I1c-S24/M223, Ix-S23, and I*-S31. Internally the predictor will continue to associate haplotypes according to the internal structure of each of the major branches. This is to prevent confusion between what ( for example ) I1a-'Norse' indicates in 'Haplogroup Mode' vs 'Subclade Mode'. Also in v0.91 were some internal tweaks that may change the observed percentages in your results and will help the predictor to work a little faster at what it does. Squished another bug affecting displayed results. Change in the internal parameters of the test to tighten test results. Please also let me know if you are now able to copy text out of the windowed results area. Also internal tweaks to improve 12-marker predictions and implemented change in Predictor table layout. Some additional modal haplotypes added.

  • v0.90: Initial Beta Release Apr 13, 2008.

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