Horse and Przewalski's horse mtDNA tree Build 1 (Jun 1, 2014)
Nucleotide position numbers are relative to the JN398377. Mutations are transitions unless an exact base change is specified.
Coding region mutations (np 1-15465) are shown in black; control region mutations (np 15466-16657) in blue.
Mutations toward a base identical-by-state to the JN398377 are indicated with the prefix @.
"W", "S", "M", "K", "R" and "Y" specify the heteroplasmic status of A/T, C/G, A/C, G/T, A/G and C/T at a certain site, respectively.
Deletions are indicated by a"d" after the deleted nucleotide position.
Insertions are indicated by a "+" followed by the position number and type of inserted nucleotide(s).
Undetermined mutations are noted by "N".
Repetitive align region np 16126-16352 are not considered.
The length variations in the A tract scored at np 5217 (5217d), and the C tract scored at np 16404 (16404d,16404+C,16404+CC) and 16560 (16560+C, 16560+CC,16560+CCCCCCCCCCC), were not considered for phylogenetic reconstruction and were therefore excluded from the tree.
The mutations 356+T,356+TC,358d,1387A,1387G,2226+C, 2227+A,5236+A, 5237+G, 5239+A, 5241+T, 5274+G, 5277+A,15381+A,15382+C,15383+A, 15383+G and 15385+T likely due to sequencing errors in Lippold,S. et al. unpublished are not considered.
Sequences of Przewalski's horses are in bold for the accession numbers.
mt-MRCA
 
A-Q 287 725 2159 3058 3848 4306 6091 6298 7247 7477 7724 8490 9218 9401 10406 12083 12314 12626 12716 12800 13696 14023 14896 15142 @15768 15772 
 
A-L 3800 8043 8150 9086 10173 10448 11966 13920 13933 15803 @15867 16540A
   
  A-K 7900 10292 @15647 15953 16626
     
    A-I 961 3070 3942 4536 5527 7666 8358 8565 10110 11879 14803 @15823
       
      ABCD 4669 6307 8005 11842 12767 15768
         
        ABC 4646 5884 6004 10376 13049 13333 
           
          AB 1387d 2788 7001 9239 10214 11543 15599 15867
             
            A 158 356 4062 11240 15647 16368
               
              A1 15717
                 
                A1a 15492 15823
                     
                    6784                                  JN398377 AP013102
                                                     
                    3557 12653 15629                               HQ439491
                   
                A1b 16110
                     
                  778 4020 4927 8140 12545 13049 14800 14811                           JN398379
                   
                  5205T 10581 15646 JN398380
                                                   
                  331 10586 16047                               KC202957
                   
                  4520                                  HQ439475
                 
                A1c 16108 JN398381
                                                     
                  10764                                  JN398382
                 
                A1d 7181 10322 
                 
                  939 3816 16388 16541                             FJ718998
                   
                  4342 6788  12824 13104                             KC202956
                 
                8807 HQ439441
                                                   
                15582                                   JN398378
                 
                12773 15720 15869 16077                               AP013084
                 
              A2 16110
                   
                260T 4017T 15599                                 JN398385
                 
                5210                                   JN398384
               
              A3 4597 13265G 15600 15669 16034 16037 16108                               JN398383
                 
            B 859 5929 7627 9961 10764 16052 16108 
             
            B1 15663 16110
               
            B1a 15582
               
              B1a1 @5929 13816 15807 @16108
                 
                7946                               JN398388
                 
                2794 13541 16077  JN398387
                                               
                15867   JN398386
                                             
                7612 8110                               KC202959
                 
                7204 9570 11896 11942 11951 13502 16653-16657d                       HQ439458
                 
                4245 11399 13166                              HQ439469
                 
                4230                                HQ439488
               
              B1a2 141+T 4482 4743 10728 11726 14689                            JN398389
               
            B1b 10832 11615 14908
                 
                150                                 JN398390
                 
                16076                                 KC202958
               
            B1c 4743 14689
               
                1896 11375 16398A                               HQ439474
                 
                669 4062N 12314 12332 16368N                             HQ439460
                 
                13741                                 HQ439486
               
            B1d 4743 7706 11113C 14689                               AP013090
             
            B2 9681 10144  @15823                                 JN398391
             
          C 957 2238 3800 4599 4884 4993 5500 6076 7942 9664 10217 11046 11129 12352 13079 15953 15971 16110 
             
          C1 9278
           
          C1a 8723 HQ439449
                                                 
            7247 12404Y JN398394
                                               
            @6076 8279 14943Y 15227 16004                               JN398395
           
            10052 15725                                    JN398392
             
            2307                                      JN398393
             
            5914 15582                                     HQ439471
           
          C2 267 15594
           
          C2a 7829
             
            163+T 15648 @16368                                 JN398397
               
            7811 8161 12806 15876                                 HQ439487
           
            3975 @4599 14656 15582 15767 16108                               JN398396
           
        D 1694 2217 6532 8867 9402 11417 11457 12191 12218 12791 13948 14200 14825 15518 @15647 15734 15767 @15823 16108 16110 16391
         
        D1 5497 15807 16084 
         
        D1a 3557
           
          D1a1 15981 
             
              15715                                    JN398399
               
              13589 @14825                                 HQ439489
             
          D1a2 @14825                                      JN398400
           
        D1b 15593 15865                                     JN398398
           
        D2 287 2188 3412 7982 8110 9384 11690 12785 @14825 15614                               KF038162
                                               
        10631                                       KF038164
       
      E-I 4830 13502 16110 
       
      E-G 382 387 5830 8037 9669 10471 12860 14350 15539 15663 @15823 
         
        E 278 1134 2938 4969 8352 9331 10400 10686 12653 12832 13259 14206 14908 15582 15594 15953 15971 16641 JN398401
                                                   
        F-G 416 2940 3576 11165 14626 14734 @15768 
         
        F 3371 3562 7504 7746 8789 11820 13042 15592 15865 @16110 16511                           JN398402 JN398403 AP013095 HQ439484 AP012267
         
        G 222 3053 5498 5881 6688 9402 9741A 11552 13223 15632 15700 
         
        G1'2'3 15594
             
        G1 5669 15582 16028
           
          G1a 14651 
               
              16084                               JN398404
               
              15612 JN398406
                                             
              725 8043 12794                             JN398405
               
              2775 2788G EF597513
                                             
              3416 4842 7769 JN398407
                                             
              13812 15297 @15594 @15700 15971                         HQ439472
               
              1603 8230 13079 @16028                           HQ439468
               
              9218 16004                               HQ439479
             
          G1b 14476 14825
               
            7831 11453  HQ439454
                                           
            3513 6097 14473 16368N                           HQ439481
           
        G2 9195                                   JN398408
           
          G2a 8286 8361 12161 13118 13589 @15647 16077 @16110 KC202963
                                           
            16056C                               KC202967
             
            5998 15020 15030T                             KC202966
             
            9304                               KC202965
           
          G2b 638 3307                                  JN398409
         
        G3 7687 @11543
           
          G3a 9145 16028  AP013099 AP013083
                                             
              12209 12546C                             AP013096
                                             
              5777T                               AP013081
               
              14726                               AP013085
               
              12209                               AP013097
               
              14107G 15971                              AP013086
             
            565R 4399 5392 8174 9145 15139 15744 15953 JN398410
                                             
            3557 4565 4673 6355 9975 14929 16028                           JN398411
           
          11210 13175 14158 @14350                               HQ439443
         
        G4 5723 11210 13328 14158 15868                                JN398412
       
      H-I 10083 13761 15582
       
      H 1546 1668 3064 4182 5272 6076 6127 6565 6835 7093 7111 7258 8481 8741 8763 8776 9209 9856 10914 14335 15004 15381d 15523 15537 15646 @15647 15715 @15823 15971 16078 
           
        4394 8618 15803 16641                                     JN398413
         
        7814 8489                                       KC202968
         
        1546N 15381d 16108 16657d HQ439490
                                               
        961 1375 2607 3517 3942 4536 5527 5815 7516 7666 7900 8058 8301 8319 8358 8403 8565 9750 9999 10110 10292 10421 10613 11693 11879 12119 12200 12896 12950 13520 13996T 14803 15313 @15492 15531 @15715 15868 15953 16065 16077 16100 16403d 16626 KF038166
       
      I 1587 1791 2614 2770 4063 4392 5061 5210 6175 6247 8358 8379 8792 9948 10238 11827 12443 12683 14554 15535 15706 
       
      I1 13466 14038 @15867
         
      I1a 3160 @15647 15971 16119
         
        I1a1 @16110
         
          4936 5276 @11240 13927 15993                            JN398415
           
            @15823                                 AP013088
           
          8230 13394                                    JN398416
         
      I1b 10699 15594 @16110 
         
          8756 9708                                    JN398414
           
          4045 9720 @15582 16119                                 AP013094
         
        10699 10793 15594 16119                                 HQ439476
       
      I2 9694 12404 15971 
         
      I2a 16436
         
      I2a1 15581 16077 
           
        I2a1a 16119                                  JN398417 KC202969
             
          I2a1a1 @16436
               
              @16368                              KC202980
               
              16626 16631d                           KC202984
             
            @16110                               KC202982
             
            10062 10089 10095 10173 12653 @15823                         KC202979
           
          @16110  KC202970
                                           
          @2614 14803 15815d                               KC202977
         
      I2a2 12633 13720 @15582 15593 
           
        I2a2a 16473 KC202973
                                           
          I2a2a1 16119                               KC202975
               
              5220G                             KC202976
               
              3568                             KC202981
             
            @13333 @15823 @16110                           KC202974
           
          9304 16119 16631d                                KC202978
         
      I2a3 16108                                    KC202971
           
          @15823                                 KC202972
           
          1606 16119                                 HQ439499 HQ439497
         
      I2a4 16119
          8187 9251 @15582 15593                              HQ439463
           
          15648                                  HQ439496
         
        4T 287 @15582 15594 15960                               KF038161
       
      I2b 4290 8074 12725 15100 16119                                 HQ439480
     
    JK 1155 2863 3963 4296 4332 4608 6388 6877 7057 7201 8082 8442 9071 9396 10217 12332 13229 13336 13948 14395 14551 15804 15868 16068
     
    J 160 384T 2263 4188 4785 6472 7576 8289 9248 11081 11821 11933 13124 15582 15601 15824 16108 16641
         
    J1 1243 3283 4782 6283 8545 10277 15529d @15647 16110 
         
        1520 JN398418
                                                 
        4C 287 1427 6658 13696 @15601                                     KF038163
       
    J2 404 881 4960 6865 13065 13325 13559 14825 15529d 15597 15992 16024                                JN398419
     
    K 2803 3283 3364 3424 4893 5569 5695 8075 8585 8631 8660 9393 9792 10415 11000 11850 12707 14175 15010 15171 15227 15541 15632 15680 15683 15772 15953                    JN398420
       
  L 1375 2899 @3070 3517 5815 7516 8058 8301 8319 9951 10421 10613 11693 12119 12200 12896 12950 13520 14995 15313 15491 15493 15531 15582 15600 15646 15868 15971 16065 16100
   
  L1 11682
   
  L1a 9684   
     
    L1a1 @15582
       
      L1a1a 16398A
       
        8142A 13040                                      HQ439446
         
        14252                                       HQ439451
         
        10956 16091                                     HQ439483
         
        7001N 16084                                     HQ439482
       
      15824                                         JN398421
                                               
      11783 14789 16077 16631d                                     KC203002
     
    L1a2 10982 13040                                         JN398425
   
  L1b 8172 14359 @15582
       
    L1b1 8361 
        @8005  JN398422
                                               
      3379                                          HQ439498
     
      6064 13484                                            JN398423
     
  L1c 2477 4901 15601 @16626                                         JN398424
     
  L2 2607 @15599
   
  L2a 8403
       
    L2a1 13785 
       
    L2a1a 5500 5932 8481 12671 14029 15682 @16065                                   JN398426
       
        @1387d 4646N 16398A                                   HQ439494
       
      3557 13265  JN398427
                                               
      13391 16028                                       JN398428
       
      4557 15594                                         AP013091
     
    L2a2 8199 
         
      L2a2a 14825  KC203006
                                               
        14252 16034                                      JN398429
         
        1837 16398A                                     HQ439452
         
        6619 15601 16398A 16649                                   HQ439492
       
      L2a2b @16065                                         KC203009
                                               
        16388                                       KC203018
       
      575 2289 6298                                       AP013079
       
      10051 15530                                       JN398430
       
      1521 4062N 4536N 5527N 8565 9716 16368N                                   HQ439459
       
      180 @15582 16398A 16657d                                     HQ439493
                                               
      287 9999 @15491 @15492 @15493 16403d @16626                                 KF038165
     
  L2b 3727 
     
    L2b1 15824 16108 
       
    L2b1a 10087 
         
      L2b1a1 15475                                       KC203008
                                               
          4757                                      HQ439470
         
        @15971                                       KC203017
         
        @16626                                       KC202988
       
      16631d                                         KC202994
     
    L2b2 12494 16398A                                         HQ439461
   
  L3 77
       
  L3a 15601 16553 
     
    L3a1 11084 16108
     
    L3a1a 15529d KC203010
                                               
      L3a1a1 @8565 13016 15133 15861 KC202990
                                               
          @12200 13466                                    KC202998
           
          @16100 @16108                                   KC203014
           
          9304 @16368 @16553                                 KC203021
         
        2799 15824                                       JN398433
         
        12314                                       KC202995
       
    L3a1b 13164 
         
      L3a1b1 3220  KC203013
                                               
        L3a1b1a 14231A KC203016
                                               
          @11084                                   KC202989
           
          4201                                   KC202985
                                             
          2339 @16368                                 KC202986
                                             
          9342T @9951 9961 @10110 @16553                             KC202993
                                             
          @12119                                   KC203004
                                             
          9304                                   KC203020
         
      L3a1b2 @3517 3568 7324C 7325 12763T 14231A                                 KC202992
       
    L3a1c 3557 12398 16110 @16553 16554                                       HQ439456
     
    L3a2 16554
         
        7840 9398 14825 @15582 16654-16657d                                   HQ439453
         
        7202T 11288 @16368 @16553                                     HQ439473
       
      2940 7206 16078                                         JN398434
       
      15571 16110                                         JN398432
     
  L3b 3557 @12950 15530 @15599 16108                                       JN398431
   
  L4 8307 12314 14659 15601 16110
     
  L4a 1459                                             KC202996
                                               
    @13520 16631d                                         KC202999
                                               
      @5884 @16368                                         KC203003
                                                 
      10456G                                           KC203005
                                                 
      12404 @12896                                         KC203012
       
      @12314 16398A                                         HQ439478
       
      @10292 16631d                                         KC202987
     
    L4b @16368 @16626                                           KC203001
   
M-Q 4605 5827 6712 8076 8238 8556T 10859 11394 11492 12332 13629 14626 15342 16118 
   
  M-N 1609T 2339A 3475 @3942 4526 4898 6076 7432 8175 8798 9332 9540 10460 10646 12029 12095 13100 13356 13502 13615 13720 14422 14671 14815 15052A 15133 15824 15866 16065 16543 16556
     
    M 427 3100 4599G 5103 @9239 15614 15656 
       
      M1 16077  HQ439442
                                                   
      M1a 874 
           
        M1a1 16110  HQ439455
                                                   
            4590 9116 @14422 16134 16142 16150                                 KC203024
           
          14183                                          JN398439
           
          5208 11725 11916 15700 16214                                     AP013092
           
          5130 13966 14773                                        JN398438
           
          198 7523 @15656  JN398437
                                                   
          @427 4062N 4526N 4536N 7001N 9002 14183 16118N 16368N                               HQ439485
         
        M1b 3211T 10515 11513                                          JN398436
             
          @4605 11789                                       HQ439466
           
          10646 11803 15582                                       HQ439495
         
        9146 15582 15822 16077C 16110                                     JN398435
       
        14252 @16065 16110 16445 16468A 16485A 16495G 16504 @16556 FJ718997
                                                   
        4386 14998 @15656 16035                                        AP013098
       
    M2 11848 16511d KC203026
                                                 
      @15803 16631d                                         KC203025
                                                 
      @15866 15867 15868 15971 16100 16110 @16118                                    KC203027
       
      13317G                                           KC203023
     
    N 2802 3557 4917 8280 9071 9402 10404 10517 15598 15835 16004 16108 16110
     
    N1 3100 13309 13567                                            JN398440
       
      15571 15582 JN398441
                                                 
      15541 @16108 16398A                                       HQ439464
     
    N2 9918 12674 13567
       
    N2a 11384 15582                                         JN398443 JN398444
                                               
      N2a1 4428 13335                                         KC203029
                                             
      4218                                       KC203030
                                             
      @4917                                       KC203031
     
      142+T 11384 @15824                                         JN398442
   
  O-Q 739 860 3259T 3271 3616 6529 7243 7612T 7898 @8043 8361 8855 9775 11378 11424 12167 12230 12404 13463 15202 15700 15774 @15803 16035 16060+C
   
  OP 1684C 3557 7427 9053 12287 13466 15594 15664 15806
     
    O 5821 6745 7375 8040 10361T @10448 10501 12305 12927 13951 15632 16110 
       
      13947 14825 15601 16357                                        JN398445
       
      965 14650 @16060+C 16398A                                       HQ439467
     
    P 1383 6505 13370
       
    P1 12314 @15594 15763 16505                                        JN398446
       
    P2 4446 13202                                           JN398447
         
    P3 339 6775 13336 13697 15601 JN398448
                                               
    P4 15601
     
    P4a @16060+C
       
        5286 12299  HQ439444
                                               
        172T 9696 14193T 14825 16054 16398A                                 HQ439445
         
        9703                                        HQ439447
         
        4605N 7981 12503 15992 @15594 16657d                                 HQ439500
       
      6415 7913 16110                                       AP013089
       
      15582 16013                                         AP013093
     
    3800N 4646N 4669N 9753 10448N 11045 @13370 13747 13761 16118N 16626N @16060+C                             HQ439457
                                               
    142 287 542 721 1892 2739 3727 5068 5359 9696 10379 10631 13304 13696 13861 14016 14825 @15594 @15599 @16118                   KF038160
   
  Q 302 341 4201 7294 9203 15737 15808 16034 16054 16110
   
  Q1 6688
   
  Q1a 10244 14825 14827
     
    3124 JN398451
                                             
    12599 13475  JN398452
                                             
  Q1b 15723
     
    Q1b1 @16060+C
     
    Q1b1a 13307 15601 @15774 @16034  @16110                                 HQ439477
         
        15866 16060C                                   HQ439465
       
      7576 9071 16060C @16110 @16118                                 HQ439448
       
      16062+T 16108                                     JN398450
     
    5824 15594 15601 15657                                     JN398449
   
  Q2'3 15582
   
  Q2 5875 15992
     
    Q2a @15582 15601
       
        653d 6952 @8076 @13463 15016G 16581+A  EF597514
                                             
      854 15647 @16054 @16060+C                                   HQ439450
     
      7060 8439 11901 16060 16060+C JN398453
                                             
  Q3 11942 13232 15601
   
    855 13111 16032                                       JN398454
   
  @16110                                         JN398455
                                         
  287 542 1427 13020 @16118                                   KF038159
 
R 2316 2869 2887 3052 4104 4113 4275 4459 4596 4918 5378 5416 5455 5669 6175A 6412 6598 6724 6930 6947 7447 7573 7576 7912 8361 8502 8678 8969 9302T 9618 10367 10751 10886 10925 11178 11383 11614 12428 12941 13211 13214 13275T 13434 13766 14114 14825 14884 14953 15076 15106 15247 15250T 15595 15613 15656 15700 15767 15773 15824 15971 15993 
 
R1 15612 16100 16473 16537
     
  3269 13402 16365 16524 JN398457
                                                   
  8304 13256 14122 14252 16108 JN398456
                                                   
  11725 14908 @15595 16108                                             AP013078
 
R2 12023 @16368 @16540A                                               FJ718996