11 11.26 6.90 0.00 Human_rDNA_Consensus_(Short)_IGS 188 216 (25288) (GTCCGG)n#Simple_repeat 1 31 (0) m_b1s252i0 1

  Human_rDNA_Co        188 GTCC-GCTCCGGGGCCGGG-ACGGGTCCGGG 216
                               - v      v     -v          
  (GTCCGG)n#Sim          1 GTCCGGGTCCGGGTCCGGGTCCGGGTCCGGG 31

Matrix = Unknown
Transitions / transversions = 0.00 (0/3)
Gap_init rate = 0.07 (2 / 28), avg. gap size = 1.00 (2 / 2)


20 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 915 934 (24608) (T)n#Simple_repeat 1 20 (4) m_b1s252i1 2

  Human_rDNA_Co        915 TTTTTTTTTTTTTTTTTTTT 934
                                               
  (T)n#Simple_r          1 TTTTTTTTTTTTTTTTTTTT 20

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 19), avg. gap size = 0.0 (0 / 0)


43 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 935 973 (28404) (TTTC)n#Simple_repeat 1 39 (0) c_b1s251i0 3

  Human_rDNA_Co        935 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTT 973
                                                                  
  (TTTC)n#Simpl          1 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTT 39

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 38), avg. gap size = 0.0 (0 / 0)


36 11.51 1.18 1.18 Human_rDNA_Consensus_(Short)_IGS 981 1065 (24477) (CT)n#Simple_repeat 1 85 (0) m_b1s252i2 4

  Human_rDNA_Co        981 CTCTCTCTC-CCCTCGCTTTCTCTTTNTCTCTCTCTCTCKNTNNCTCTCT 1029
                                    - i   v  i     i ?            ?? ??      
  (CT)n#Simple_          1 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 50

  Human_rDNA_Co       1030 CTNNTCTGTCTCTSACTCTCGCCSTCTCTCTCTCTC 1065
                             -?   v     ?v     v i?            
  (CT)n#Simple_         51 CT-CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 85

Matrix = Unknown
Transitions / transversions = 1.00 (4/4)
Gap_init rate = 0.02 (2 / 84), avg. gap size = 1.00 (2 / 2)

37 2.55 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 1071 1111 (28266) (CT)n#Simple_repeat 1 41 (0) c_b1s251i1 4

  Human_rDNA_Co       1071 CTCTCYCTCTGTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 1111
                                ?    v                              
  (CT)n#Simple_          1 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 41

Matrix = Unknown
Transitions / transversions = 0.00 (0/1)
Gap_init rate = 0.00 (0 / 40), avg. gap size = 0.0 (0 / 0)


40 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 1554 1590 (27787) (TTTC)n#Simple_repeat 1 37 (0) c_b1s251i2 5

  Human_rDNA_Co       1554 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCT 1590
                                                                
  (TTTC)n#Simpl          1 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCT 37

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 36), avg. gap size = 0.0 (0 / 0)


20 6.26 2.70 0.00 Human_rDNA_Consensus_(Short)_IGS 1592 1628 (23990) (TC)n#Simple_repeat 1 38 (0) m_b1s252i3 6

  Human_rDNA_Co       1592 TCTCTCTCTCTCTCTCTYTSTCTCTC-CBTTCTCCCTC 1628
                                            ? ?      - ?i    i   
  (TC)n#Simple_          1 TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 38

Matrix = Unknown
Transitions / transversions = 1.00 (2/0)
Gap_init rate = 0.03 (1 / 36), avg. gap size = 1.00 (1 / 1)


603 13.38 6.20 1.48 Human_rDNA_Consensus_(Short)_IGS 1660 1788 (23830) C AluSx#SINE/Alu (177) 135 1 m_b1s357i0 7

  Human_rDNA_Co       1660 AAGTTTTCTNTNTN-GGTAARGNCNTAATTTCACCATTTTG-CNGGGCTG 1707
                             v    v ? ? ?-i   i? ? ?vii         v   - ?i     
C AluSx#SINE/Al        135 AATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGCTG 86

  Human_rDNA_Co       1708 GTCTCGAACTCCNNT-----GGTGATCCGCC-GCCTCGGCCTCCCAAAGA 1751
                                       ??v-----           -                 -
C AluSx#SINE/Al         85 GTCTCGAACTCCTGACCTCAGGTGATCCGCCCGCCTCGGCCTCCCAAAG- 37

  Human_rDNA_Co       1752 CTGCTGGGAGTACAGATTTGGGCCACCATGCCCGGCC 1788
                           -        v     iiv  i      ii        
C AluSx#SINE/Al         36 -TGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC 1

Matrix = 18p53g.matrix
Kimura (with divCpGMod) = 13.27
Transitions / transversions = 1.43 (10/7)
Gap_init rate = 0.05 (6 / 128), avg. gap size = 1.67 (10 / 6)


63 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 1848 1905 (27472) (AC)n#Simple_repeat 1 58 (0) c_b1s251i3 8

  Human_rDNA_Co       1848 ACACAYACACACACACACACACACACACACACACACACACACACACACAC 1897
                                ?                                            
  (AC)n#Simple_          1 ACACACACACACACACACACACACACACACACACACACACACACACACAC 50

  Human_rDNA_Co       1898 ACACACAC 1905
                                   
  (AC)n#Simple_         51 ACACACAC 58

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 57), avg. gap size = 0.0 (0 / 0)


13 8.91 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 2027 2051 (23624) (TCCT)n#Simple_repeat 1 25 (0) m_b1s252i4 9

  Human_rDNA_Co       2027 TCCTTCCTNCCTTCCTTCATTCATT 2051
                                   ?         v   v  
  (TCCT)n#Simpl          1 TCCTTCCTTCCTTCCTTCCTTCCTT 25

Matrix = Unknown
Transitions / transversions = 0.00 (0/2)
Gap_init rate = 0.00 (0 / 24), avg. gap size = 0.0 (0 / 0)


230 6.45 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 2132 2162 (23513) C 7SLRNA#SINE/Alu (269) 51 21 m_b1s502i0 10

  Human_rDNA_Co       2132 CCTCAGCCTCCCAAATAGCTGGGACTACAGG 2162
                                       i i                
C 7SLRNA#SINE/A         51 CCTCAGCCTCCCGAGTAGCTGGGACTACAGG 21

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 3.68
Transitions / transversions = 1.00 (2/0)
Gap_init rate = 0.00 (0 / 30), avg. gap size = 0.0 (0 / 0)


38 0.00 0.00 2.56 Human_rDNA_Consensus_(Short)_IGS 2235 2274 (27103) (GGTGG)n#Simple_repeat 1 39 (0) c_b1s251i4 11

  Human_rDNA_Co       2235 GGTGGGGTGGGGTGGGGTGGGGGTGGGGTGGGGTGGGGTG 2274
                                             -                     
  (GGTGG)n#Simp          1 GGTGGGGTGGGGTGGGGT-GGGGTGGGGTGGGGTGGGGTG 39

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.03 (1 / 39), avg. gap size = 1.00 (1 / 1)


39 4.16 0.00 3.85 Human_rDNA_Consensus_(Short)_IGS 2408 2461 (26916) (TTCC)n#Simple_repeat 1 52 (0) c_b1s251i5 12

  Human_rDNA_Co       2408 TTCCTTCCTTCCTTCCTTCCTTCCNTTCCTTCCCTCCCTCCCTTCCTTCC 2457
                                                   -      -   i   i          
  (TTCC)n#Simpl          1 TTCCTTCCTTCCTTCCTTCCTTCC-TTCCTT-CCTTCCTTCCTTCCTTCC 48

  Human_rDNA_Co       2458 TTCC 2461
                               
  (TTCC)n#Simpl         49 TTCC 52

Matrix = Unknown
Transitions / transversions = 1.00 (2/0)
Gap_init rate = 0.04 (2 / 53), avg. gap size = 1.00 (2 / 2)


60 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 2647 2697 (26680) (TG)n#Simple_repeat 1 51 (0) c_b1s251i6 13

  Human_rDNA_Co       2647 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 2696
                                                                             
  (TG)n#Simple_          1 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 50

  Human_rDNA_Co       2697 T 2697
                            
  (TG)n#Simple_         51 T 51

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 50), avg. gap size = 0.0 (0 / 0)


50 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 2864 2908 (26469) (TGCC)n#Simple_repeat 1 45 (0) c_b1s251i7 14

  Human_rDNA_Co       2864 TGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCT 2908
                                                                        
  (TGCC)n#Simpl          1 TGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCTGCCT 45

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 44), avg. gap size = 0.0 (0 / 0)


814 15.58 6.79 1.29 Human_rDNA_Consensus_(Short)_IGS 3184 3404 (22457) C AluSx#SINE/Alu (6) 306 74 m_b1s356i0 15

  Human_rDNA_Co       3184 TTTTNTTCTTTTTTTTTATTCTCTTAGACG-AGTTTCACTCTTGNTGNCC 3232
                               ?  i         v  i i v     -   i  i    --? v?  
C AluSx#SINE/Al        306 TTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCT--GTCGCC 259

  Human_rDNA_Co       3233 CAGGGTGGAGTACNAWGGN-----CTCG-CNCACNNCGMCCCCCCGCCTC 3276
                               v      i ?i?  ?-----    - ?   ?? i?  i  -     
C AluSx#SINE/Al        258 CAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCC-GCCTC 210

  Human_rDNA_Co       3277 CCAGGTTCAAGTGATTCTCCTGCCTCAGCCTTCCGNGNNGCT-GAATGAC 3325
                             i        i                   i   ? ??   - i  v  
C AluSx#SINE/Al        209 CCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTAC 160

  Human_rDNA_Co       3326 AGAGATGAGYCATCGTG-CCGGCTAATTTT----TTTTTANTACAGA-GG 3369
                             ivii v ?  i ii -            ----      ?  v   -  
C AluSx#SINE/Al        159 AGGCGCGCGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGG 110

  Human_rDNA_Co       3370 GGTTTCTCCATCTTGGTCA-GCTGGTCTTCAACTTC 3404
                                 v    v    i  -        iv    i 
C AluSx#SINE/Al        109 GGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCC 74

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 14.58
Transitions / transversions = 2.00 (22/11)
Gap_init rate = 0.05 (11 / 220), avg. gap size = 1.64 (18 / 11)


26 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 3477 3501 (25876) (CCT)n#Simple_repeat 1 25 (0) c_b1s251i8 16

  Human_rDNA_Co       3477 CCTCCTCCTCCTCCTCCTCCTCCTC 3501
                                                    
  (CCT)n#Simple          1 CCTCCTCCTCCTCCTCCTCCTCCTC 25

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 24), avg. gap size = 0.0 (0 / 0)


626 21.16 7.78 0.73 Human_rDNA_Consensus_(Short)_IGS 4562 4818 (21067) AluSx#SINE/Alu 13 287 (25) m_b1s357i1 17

  Human_rDNA_Co       4562 TAGCTCAC-CTCGTCACYCCCGC-CTTTGGGAGGCCGAGGCGG-TGGRWN 4608
                            i      - ii  v i?  v  -                   -i  ???
  AluSx#SINE/Al         13 TGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATC 62

  Human_rDNA_Co       4609 CGGTGGGG-CGGGAGTTCGAGACCAGGCTGGCNSG---GGCGTAAAACCC 4654
                           vvv  i  - i               v     ??i---  i -   v   
  AluSx#SINE/Al         63 ACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTG-AAACCCC 111

  Human_rDNA_Co       4655 GTCTCT-CTGAAAATAGARCGATTAGCGGGGCYTG-TGGCGGGG--TTGG 4700
                                 -  i      v ?vi      v    ?  -     v v--i  v
  AluSx#SINE/Al        112 GTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGT 161

  Human_rDNA_Co       4701 AATCMCGACCGC-CGGGAGA-TGGGG--GGCGA-TTKTTCCAACC-GGGA 4744
                               ? ii ii -      i-  i  --  v  - i?i iv    -    
  AluSx#SINE/Al        162 AATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGA 211

  Human_rDNA_Co       4745 GGCCGGNNTTGCGATGAGCTGAGATCGTGCGGC-GCG-ANCGGCCTGGAT 4792
                              v i??    ii     i       i  vi -  i-v? i      ii
  AluSx#SINE/Al        212 GGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGC 261

  Human_rDNA_Co       4793 GACGGRGCGAGAC-CCGTCCTCGAGAA 4818
                              i ?       -    -   i i  
  AluSx#SINE/Al        262 GACAGAGCGAGACTCCGT-CTCAAAAA 287

Matrix = 18p53g.matrix
Kimura (with divCpGMod) = 23.29
Transitions / transversions = 1.89 (34/18)
Gap_init rate = 0.07 (18 / 256), avg. gap size = 1.22 (22 / 18)


267 15.60 2.47 5.06 Human_rDNA_Consensus_(Short)_IGS 4846 4926 (20959) 7SLRNA#SINE/Alu 7 85 (235) m_b1s502i1 18

  Human_rDNA_Co       4846 CGCGGTGATGGCCGCCTGTAGTCN--GCTACYGGGNANGCTGAGGCGGGG 4893
                                  ii vv           ?--     ?v  ? ?          --
  7SLRNA#SINE/A          7 CGCGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCGG-- 54

  Human_rDNA_Co       4894 AGAAGATCACTTGAGGCCCNACAGGTCGAGGCT 4926
                           -  i    i     -    ?iv  v  vi    
  7SLRNA#SINE/A         55 -GAGGATCGCTTGA-GCCCAGGAGTTCTGGGCT 85

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 15.72
Transitions / transversions = 1.00 (6/6)
Gap_init rate = 0.06 (5 / 80), avg. gap size = 1.20 (6 / 5)


26 20.94 3.19 4.30 Human_rDNA_Consensus_(Short)_IGS 4989 5029 (20895) (TTCTC)n#Simple_repeat 1 41 (52) m_b1s252i5 19

  Human_rDNA_Co       4989 TTTTCTTTTCTTCCCTTCTCTTTTCTTCTTTTTGCTTCTCT 5029
                             i    i     i        i      i  iv       
  (TTCTC)n#Simp          1 TTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCTTCTCT 41

Matrix = Unknown
Transitions / transversions = 6.00 (6/1)
Gap_init rate = 0.00 (0 / 40), avg. gap size = 0.0 (0 / 0)


38 0.00 0.00 2.56 Human_rDNA_Consensus_(Short)_IGS 5030 5069 (24308) (TTTC)n#Simple_repeat 1 39 (0) c_b1s251i9 20

  Human_rDNA_Co       5030 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTTCTTT 5069
                                                           -       
  (TTTC)n#Simpl          1 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC-TTTCTTT 39

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.03 (1 / 39), avg. gap size = 1.00 (1 / 1)


26 20.94 3.19 4.30 Human_rDNA_Consensus_(Short)_IGS 5070 5121 (20803) (TTCTC)n#Simple_repeat 42 93 (0) m_b1s252i5 21

  Human_rDNA_Co       5070 TCTCTTC-CCTCT-TTCNTNTNCCGCCTTTCTTCTTTTCTTCTT-TCCTC 5116
                                  - i   -   - ? -i v i i      i   -    -  i  
  (TTCTC)n#Simp         42 TCTCTTCTCTTCTCTTC-TCT-TCTCTTCTCTTCTCTTC-TCTTCTCTTC 88

  Human_rDNA_Co       5117 CCTTC 5121
                           i    
  (TTCTC)n#Simp         89 TCTTC 93

Matrix = Unknown
Transitions / transversions = 7.00 (7/1)
Gap_init rate = 0.12 (6 / 51), avg. gap size = 1.00 (6 / 6)


514 23.20 13.36 4.58 Human_rDNA_Consensus_(Short)_IGS 5257 5409 (20813) C AluJb#SINE/Alu (26) 286 139 m_b1s357i2 22

  Human_rDNA_Co       5257 TTTAGAGSCGGCATCTCGCTCCGTCACCC-GGCAGTGGTGCCGT--CGTR 5303
                              v   ? i vi        i   i   -   v vi    v  --  i?
C AluJb#SINE/Al        286 TTTTGAGACAGGGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCG 237

  Human_rDNA_Co       5304 ANCCCC-CTCCCTGCAGCGTGGGC-TCCTGGACTCG-GCGATCCTTCCAC 5350
                            ? v v-   v       v v i -   i  i   i-        i  i 
C AluJb#SINE/Al        236 ATCACGGCTCACTGCAGCCTCGACCTCCCGGGCTCAAGCGATCCTCCCGC 187

  Human_rDNA_Co       5351 CTCAGCCTCCAGAGTACAGAGCCTGGGACCGCGGGCNCAGCGCCACTGTG 5400
                                     v     v-----       ii i   ? -       iii 
C AluJb#SINE/Al        186 CTCAGCCTCCCGAGTAG-----CTGGGACTACAGGCGC-GCGCCACCACG 143

  Human_rDNA_Co       5401 CCCACACCG 5409
                              ----- 
C AluJb#SINE/Al        142 CCC-----G 139

Matrix = 18p53g.matrix
Kimura (with divCpGMod) = 23.27
Transitions / transversions = 1.50 (18/12)
Gap_init rate = 0.11 (16 / 152), avg. gap size = 1.06 (17 / 16)


1436 16.89 1.67 1.00 Human_rDNA_Consensus_(Short)_IGS 5410 5708 (23022) C AluSx#SINE/Alu (11) 301 1 c_b1s352i0 23

  Human_rDNA_Co       5410 TTTTTAATTGTTTTTCCCCGAGACAGAGTTTCACTCTGGTGGCCTAGACT 5459
                                vv  v     iiii     i    i  i     - v   i  i  
C AluSx#SINE/Al        301 TTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTG-TCGCCCAGGCT 253

  Human_rDNA_Co       5460 GCAGTSGCGYG-CGCGATCTTGGCTCACCGCAACCTCTGCCTCCCGGTTT 5508
                            v   ?vv ? -        i       i        i         v  
C AluSx#SINE/Al        252 GGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCCGCCTCCCGGGTT 203

  Human_rDNA_Co       5509 CAAGCGATTCTCCTGCATCGGCCTCCTGAGTAGC-GGGATTGCGGGCATN 5557
                                           v  i      i       -      i i   ii?
C AluSx#SINE/Al        202 CAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCG 153

  Human_rDNA_Co       5558 CGCTGCCMCCGTCTGGCTGA-TTTCGTATTTTTAGTGGAGACGGGGCTTC 5606
                              ii  ?-  i i    i -   i           i         i   
C AluSx#SINE/Al        152 CGCCACCA-CGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTC 104

  Human_rDNA_Co       5607 TCCATGTCGATCGGGCTGGTTTTGAACTCCCGACCCNCAGGTGATCCGGN 5656
                           v      i ii i       i i       i  -  ?           v?
C AluSx#SINE/Al        103 ACCATGTTGGCCAGGCTGGTCTCGAACTCCTGA-CCTCAGGTGATCCGCC 55

  Human_rDNA_Co       5657 CCNCCCGGCCTCCGGAAGTGCTGGGATGAC-GGCGTGAGCCACCG-GCCC 5704
                            v? i        vi            v  -              -    
C AluSx#SINE/Al         54 CGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCC 5

  Human_rDNA_Co       5705 GGCC 5708
                               
C AluSx#SINE/Al          4 GGCC 1

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 15.92
Transitions / transversions = 2.50 (35/14)
Gap_init rate = 0.03 (8 / 298), avg. gap size = 1.00 (8 / 8)


514 23.20 13.36 4.58 Human_rDNA_Consensus_(Short)_IGS 5709 5816 (20406) C AluJb#SINE/Alu (174) 138 4 m_b1s357i2 22

  Human_rDNA_Co       5709 TTCATTTTTAAATGTTTTCCCACAGGCCGGGGTCTCATCAT--------- 5749
                           i v      iv  -    ivi v  i -     i  ii   ---------
C AluJb#SINE/Al        138 CTAATTTTTGTAT-TTTTTGTAGAGAC-GGGGTTTCGCCATGTTGCCCAG 91

  Human_rDNA_Co       5750 -------------TTCT----TT--GCAACCCTCCTGCC-CGGCGTCTCA 5779
                           ------------- i  ---- i--  i i  ?  i   -    v  i  
C AluJb#SINE/Al         90 GCTGGTCTCGAACTCCTGGGCTCAAGCGATCCNCCCGCCTCGGCCTCCCA 41

  Human_rDNA_Co       5780 AAGTGCTGGGCGTGGCGGGGKGAGCCACTGCGCCTGG 5816
                                     vv ivv  v ?       i     i  
C AluJb#SINE/Al         40 AAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGG 4

Matrix = 18p53g.matrix
Kimura (with divCpGMod) = 23.27
Transitions / transversions = 1.70 (17/10)
Gap_init rate = 0.07 (7 / 107), avg. gap size = 4.43 (31 / 7)


38 0.00 1.75 5.45 Human_rDNA_Consensus_(Short)_IGS 5857 5913 (23464) (CTTT)n#Simple_repeat 1 55 (0) c_b1s251i10 24

  Human_rDNA_Co       5857 CTTTYTTTCTTTCTTT-TTTCTTTCTTTCTTTCTTTCTTTCTTNNGTCTT 5905
                               ?           -                          ---    
  (CTTT)n#Simpl          1 CTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT---TCTT 47

  Human_rDNA_Co       5906 TCTTTCTT 5913
                                   
  (CTTT)n#Simpl         48 TCTTTCTT 55

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.07 (4 / 56), avg. gap size = 1.00 (4 / 4)


12 9.24 0.00 4.17 Human_rDNA_Consensus_(Short)_IGS 6282 6306 (19972) (TCTT)n#Simple_repeat 1 24 (0) m_b1s252i6 25

  Human_rDNA_Co       6282 TCTTACTTTCATTTCTTCCTTTCTT 6306
                               v     -      i       
  (TCTT)n#Simpl          1 TCTTTCTTTC-TTTCTTTCTTTCTT 24

Matrix = Unknown
Transitions / transversions = 1.00 (1/1)
Gap_init rate = 0.04 (1 / 24), avg. gap size = 1.00 (1 / 1)


15 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 6409 6427 (19851) (CAC)n#Simple_repeat 1 19 (0) m_b1s252i7 26

  Human_rDNA_Co       6409 CACCACCACCACCACCACC 6427
                                              
  (CAC)n#Simple          1 CACCACCACCACCACCACC 19

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 18), avg. gap size = 0.0 (0 / 0)


652 25.71 2.26 7.54 Human_rDNA_Consensus_(Short)_IGS 6453 6717 (19561) L1PREC2_3end#LINE/L1 650 901 (6) m_b1s551i0 27

  Human_rDNA_Co       6453 AATACNGCGTGTTCTCATCTAGAAGTGGGAACTTACAGATGACAGTTCTT 6502
                                ?  i        ii  v        i  v vv     v ii? --
  L1PREC2_3end#        650 AATACCGCATGTTCTCACTTATAAGTGGGAGCTAAATGATGAGAACNC-- 697

  Human_rDNA_Co       6503 GCATGGGCAGAACGAGGGGGACCGGGGGC---GAAGTCTGCTTGAGGGAG 6549
                           --    i  v  v      i  vivi i --- ii i  i        v 
  L1PREC2_3end#        698 --ATGGACACAAAGAGGGGAACAACAGACACTGGGGCCTACTTGAGGGTG 745

  Human_rDNA_Co       6550 GGAGGGGTGGAAGGAGAGACAGCTTCAGGAAGAAAACAAAACACGAATAC 6599
                            i--      i     i  v  vv?   i  i  v ------------  
  L1PREC2_3end#        746 GA--GGGTGGGAGGAGGGAGAGGANCAGAAAAAATA------------AC 781

  Human_rDNA_Co       6600 TGTCGGACACAGCACTGACTACC-GGGTGATGAAATCATCTGCACACTGA 6648
                            i i  ii  vivi  v v    -      i     v     i   vii 
  L1PREC2_3end#        782 TATTGGGTACTAGGCTTAGTACCTGGGTGACGAAATAATCTGTACAACAA 831

  Human_rDNA_Co       6649 ACACCCCGT--CACAAGTTTACCTATGTCACAATCTTGCACATGTATGCT 6696
                             -      --   i           i v    v i          iv i
  L1PREC2_3end#        832 AC-CCCCGTGACACGAGTTTACCTATATAACAAACCTGCACATGTACCCC 880

  Human_rDNA_Co       6697 TGAACGACAAATAAAAAGTTA 6717
                                vvv        iv ? 
  L1PREC2_3end#        881 TGAACCTAAAATAAAAGTTNA 901

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 31.37
Transitions / transversions = 1.33 (36/27)
Gap_init rate = 0.08 (22 / 264), avg. gap size = 1.14 (25 / 22)


60 1.72 1.69 0.00 Human_rDNA_Consensus_(Short)_IGS 6732 6790 (22587) (GA)n#Simple_repeat 1 60 (0) c_b1s251i11 28

  Human_rDNA_Co       6732 GAGAGAGAGAGAGAGAGAGAGAGACAGAGAGAGAGAGAGAGAGAGAGAGA 6781
                                                   v                         
  (GA)n#Simple_          1 GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA 50

  Human_rDNA_Co       6782 G-GAGAGAGA 6790
                            -        
  (GA)n#Simple_         51 GAGAGAGAGA 60

Matrix = Unknown
Transitions / transversions = 0.00 (0/1)
Gap_init rate = 0.02 (1 / 58), avg. gap size = 1.00 (1 / 1)


31 3.03 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 6878 6911 (22466) (T)n#Simple_repeat 1 34 (0) c_b1s251i12 29

  Human_rDNA_Co       6878 TTTTTTTTTTTTTTTTTCTTTTTTTTTTTTTTTT 6911
                                            i                
  (T)n#Simple_r          1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT 34

Matrix = Unknown
Transitions / transversions = 1.00 (1/0)
Gap_init rate = 0.00 (0 / 33), avg. gap size = 0.0 (0 / 0)


1226 14.58 6.85 0.38 Human_rDNA_Consensus_(Short)_IGS 6925 7172 (21705) C AluSx#SINE/Alu (39) 273 10 c_b1s352i1 30

  Human_rDNA_Co       6925 TCTGGCTCTGTCACCCAGGCTG-CNTGCGGTGGC---CTCTCGGCTCACT 6970
                              v        i         -v?   i     ---v            
C AluSx#SINE/Al        273 TCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACT 224

  Human_rDNA_Co       6971 GAAACCTCTGCTTCNCGGGTTCCAGTGATTCTTCT-----------TCG- 7008
                            v      i  i  ?       v  i      i  -----------i  -
C AluSx#SINE/Al        223 GCAACCTCCGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGA 174

  Human_rDNA_Co       7009 GTAGCTGGGATTACAGGNGCACACCATACCGGCCGGCTCATATTCCTATT 7058
                                            ?  i i   ivv  v      v  v  iv    
C AluSx#SINE/Al        173 GTAGCTGGGATTACAGGCGCGCGCCACCACGCCCGGCTAATTTTTGTATT 124

  Human_rDNA_Co       7059 TTCAGTAGAGACGGGGTTTCTCCANGTTAGCCC-GCTGGTCTCGAACTCC 7107
                             i                 v   ?   i   v-                
C AluSx#SINE/Al        123 TTTAGTAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCC 74

  Human_rDNA_Co       7108 TGACCTCAAATGATCCGCCTTCCTGGGCCTCCCAAAGTGCTGGAAACGAC 7157
                                   ii         iv   v                  -i iv  
C AluSx#SINE/Al         73 TGACCTCAGGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGG-GATTAC 25

  Human_rDNA_Co       7158 AGGCCTGAGCCGCCG 7172
                               v      i   
C AluSx#SINE/Al         24 AGGCGTGAGCCACCG 10

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 13.81
Transitions / transversions = 1.12 (19/17)
Gap_init rate = 0.02 (6 / 247), avg. gap size = 3.00 (18 / 6)


33 2.68 0.00 2.56 Human_rDNA_Consensus_(Short)_IGS 7339 7378 (21999) (TAAC)n#Simple_repeat 1 39 (0) c_b1s251i13 31

  Human_rDNA_Co       7339 TAACTAACTAACAAACTAACTAACTAACTAAACTAACTAA 7378
                                       v                -          
  (TAAC)n#Simpl          1 TAACTAACTAACTAACTAACTAACTAACT-AACTAACTAA 39

Matrix = Unknown
Transitions / transversions = 0.00 (0/1)
Gap_init rate = 0.03 (1 / 39), avg. gap size = 1.00 (1 / 1)


1199 15.11 0.88 0.88 Human_rDNA_Consensus_(Short)_IGS 7481 7707 (18948) AluSx#SINE/Alu 64 290 (22) m_b1s356i1 32

  Human_rDNA_Co       7481 CCCGAGGTCAGGAGTTCGAGACCAGCCCCSGCCARCGTGGTGAAACCCCG 7530
                             i                        i-?    ? i             
  AluSx#SINE/Al         64 CCTGAGGTCAGGAGTTCGAGACCAGCCT-GGCCAACATGGTGAAACCCCG 112

  Human_rDNA_Co       7531 TCTCTACTGAAAATACGAAATGGAGTCAGGCCGTGG-GGCAGGCACCTGT 7579
                                   i       i   vvv  i i  -     -   iv  i     
  AluSx#SINE/Al        113 TCTCTACTAAAAATACAAAAATTAGCCGGG-CGTGGTGGCGCGCGCCTGT 161

  Human_rDNA_Co       7580 AACCCCAGCTACTCGGGAGGCTGGGGTGGAARAATTG-NTGAACCYGGCA 7628
                             i                    i  ii i ?   i -?      ?  v 
  AluSx#SINE/Al        162 AATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGA 211

  Human_rDNA_Co       7629 GGGGGAGGCTGCAGTGACCAAAGATCGCACCACTGCACTACAGCCTGGGY 7678
                             v     i        v vi       i          v         ?
  AluSx#SINE/Al        212 GGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGC 261

  Human_rDNA_Co       7679 GACAGAGTGAGACCAGGTCTCCAGATAAA 7707
                                  i     ivv     v i v   
  AluSx#SINE/Al        262 GACAGAGCGAGACTCCGTCTCAAAAAAAA 290

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 13.92
Transitions / transversions = 1.62 (21/13)
Gap_init rate = 0.02 (4 / 226), avg. gap size = 1.00 (4 / 4)


34 6.52 0.00 2.04 Human_rDNA_Consensus_(Short)_IGS 7727 7776 (21601) (ATAC)n#Simple_repeat 1 49 (0) c_b1s251i14 33

  Human_rDNA_Co       7727 ATACATACATACATACATANAATACATACATACATACATCCATGCATACA 7776
                                              -v                  v   i      
  (ATAC)n#Simpl          1 ATACATACATACATACATA-CATACATACATACATACATACATACATACA 49

Matrix = Unknown
Transitions / transversions = 0.50 (1/2)
Gap_init rate = 0.02 (1 / 49), avg. gap size = 1.00 (1 / 1)


23 17.36 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 7784 7823 (18881) (A)n#Simple_repeat 1 40 (0) m_b1s252i9 34

  Human_rDNA_Co       7784 AAGAAAAAAAAAAAAAGAAAAAAGAAGAAAATGAAAAAAA 7823
                             i             i      i  i    vi       
  (A)n#Simple_r          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 40

Matrix = Unknown
Transitions / transversions = 5.00 (5/1)
Gap_init rate = 0.00 (0 / 39), avg. gap size = 0.0 (0 / 0)


61 24.49 3.39 2.18 Human_rDNA_Consensus_(Short)_IGS 7853 8442 (18262) (TCTC)n#Simple_repeat 1 597 (0) m_b1s252i10 35

  Human_rDNA_Co       7853 TCTCNTCTGTCTGTTTCTCTGT-TCGATCTCTGTCTTTCTCT-TTTCTCT 7900
                               -   v   v i     v -  vv     v   i     - i     
  (TCTC)n#Simpl          1 TCTC-TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 49

  Human_rDNA_Co       7901 TTCTCTGTCTGTCTGTCTCTTTCTTTCTCTCT-TCTGTCTCNTNCTCTCT 7949
                           i     v   v   v     i   i       -   v    - -      
  (TCTC)n#Simpl         50 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC-T-CTCTCT 97

  Human_rDNA_Co       7950 CTCYGCCTRTCTC-CNGTGTC-CTCTCTNNCT-TNTCT-TGTTTCT-TCT 7994
                              ?vi  ?    - ?v v  -      ??  - ?   - v i   -   
  (TCTC)n#Simpl         98 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 147

  Human_rDNA_Co       7995 CTCCCTC-CTGTCTNNNNNCNTTCTCCGTTCCGATCNTCTCTCTGTCTGT 8043
                              i   -  v   -???? ?i    iv ii vv  -       v   v 
  (TCTC)n#Simpl        148 CTCTCTCTCTCTCT-CTCTCTCTCTCTCTCTCTCTC-TCTCTCTCTCTCT 195

  Human_rDNA_Co       8044 CTNGTCGATCTCTGTCTGTCTCATTCTCTGTCTGNTTC-CTCTCTGTCTG 8092
                             -v  vv     v   v    vi     v   v?i  -      v   v
  (TCTC)n#Simpl        196 CT-CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 244

  Human_rDNA_Co       8093 TNGNNTTNT-TCTGTCNCCCTCTTTCTGT-TCTTTC-CTGTC-CTCCNNN 8138
                            ?v??i ? -   v  ? i    i   v -   i  -  v  -   i???
  (TCTC)n#Simpl        245 TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 294

  Human_rDNA_Co       8139 NNTCTNTNTCTNNTCTCTNNNTCTTNTTCTNTNTCTCT-TCTCTCTCTCN 8187
                           ??   ? ?   -?     ???   i?i   ? ?     -          -
  (TCTC)n#Simpl        295 TCTCTCTCTCT-CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC- 342

  Human_rDNA_Co       8188 AWTCTCTGTCTGTCTAACTTTCTGTCTATCTCGWATCRACTGTMTMNNTC 8237
                           v?     v   v   vv  i   v   v    -?v  -v  v ? ???  
  (TCTC)n#Simpl        343 TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC-TCTC-TCTCTCTCTCTC 390

  Human_rDNA_Co       8238 -CGACCGNTCNNNNNGTC-CAWCCTATCTGTCCCTTTCTGTNTNT-TCTC 8284
                           - vvi v?  ?????v  - v?i  v   v  i  i   v ? ? -    
  (TCTC)n#Simpl        391 TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 440

  Human_rDNA_Co       8285 TCTCTCTATCTCTTTCTSTCCGTNNNTCNNNCTCTGTCTGTCCCCWTCCN 8334
                                  v     i   ?  iv ???  ???    v   v  i i?  i?
  (TCTC)n#Simpl        441 TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC 490

  Human_rDNA_Co       8335 NGTCTGTCTCNTNTCCNNCTRTCTCGATCTCTCTCTCTGNTCCCTVTCTA 8384
                           ?v   v    - ?  i??  ?    vv           -?  i  ?   v
  (TCTC)n#Simpl        491 TCTCTCTCTC-TCTCTCTCTCTCTCTCTCTCTCTCTCT-CTCTCTCTCTC 538

  Human_rDNA_Co       8385 TCTATCTGCASTRTGTCTGTCT-TCTGTCTTATTCTCTTTCTCT-TCTRT 8432
                              v   - v? ? v   v   -   v   ivi     i     -   ? 
  (TCTC)n#Simpl        539 TCTCTCT-CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 587

  Human_rDNA_Co       8433 CTGTCTCTCT 8442
                             v       
  (TCTC)n#Simpl        588 CTCTCTCTCT 597

Matrix = Unknown
Transitions / transversions = 0.54 (37/68)
Gap_init rate = 0.06 (33 / 589), avg. gap size = 1.00 (33 / 33)


74 21.84 0.70 2.12 Human_rDNA_Consensus_(Short)_IGS 8695 8981 (17723) (CTCT)n#Simple_repeat 1 283 (0) m_b1s252i11 36

  Human_rDNA_Co       8695 CTCTCTCTATCTGTCTCTCTCTCTVTCTTTTTCTCTCTGTSTGTCTCANN 8744
                                   v   v           ?   i i       v ? v    -??
  (CTCT)n#Simpl          1 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTC-TC 49

  Human_rDNA_Co       8745 TCTGTCTYTCTYTCTCTMTCTSCCCNNGCTGTCGATCNCGTGTCTATCT- 8793
                              v   ?   ?     ?   - i ??v  v  vv  ? - v   v   -
  (CTCT)n#Simpl         50 TCTCTCTCTCTCTCTCTCTCT-CTCTCTCTCTCTCTCTC-TCTCTCTCTC 97

  Human_rDNA_Co       8794 TCTNNTCTCAYTCACCGTCTCTCCGTCTCCNNCTNTCTGTCTGTTTCTCT 8843
                              -?    v?  v iv      iv    i??  ?   v   v i     
  (CTCT)n#Simpl         98 TCT-CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 146

  Human_rDNA_Co       8844 CTGTCTCTGTCTTTCTNNGTCTGTCTNT-TNTCTTTCTCCCTCCCTGTCT 8892
                             v     v   i   ??v   v   ? - ?   i    i   i  v   
  (CTCT)n#Simpl        147 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 196

  Human_rDNA_Co       8893 GTTTCTCTCYCTCCNTCTCTCTCTCTCTCTGTCTGTCTGTNTCTCTCTAT 8942
                           v i      ?   i?               v   v   v ?       v 
  (CTCT)n#Simpl        197 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 246

  Human_rDNA_Co       8943 CTGCTGTCCATCTCTGTCTTTCTATGCTGTCTCYTTCTC 8981
                             -  v  iv     v   i   v -  v    ?i    
  (CTCT)n#Simpl        247 CT-CTCTCTCTCTCTCTCTCTCTCT-CTCTCTCTCTCTC 283

Matrix = Unknown
Transitions / transversions = 0.50 (16/32)
Gap_init rate = 0.03 (8 / 286), avg. gap size = 1.00 (8 / 8)


228 22.77 5.94 0.00 Human_rDNA_Consensus_(Short)_IGS 8993 9093 (17611) MER39B#LTR/ERV1 296 402 (251) m_b1s502i2 37

  Human_rDNA_Co       8993 AGACNCCCCGTGCGGGTAGGGCCCTGCCCCTC--CGANGTGGCNAGCCCG 9040
                               ?   vv v i iv    i        v -- v ?iv  v?i vvi 
  MER39B#LTR/ER        296 AGACCCCCATTCCAGAGAGGGTCCTGCCCCACACCCAGAAGGAAGGAATG 345

  Human_rDNA_Co       9041 -GTGCTTAGAGGMGNCGAG--GAATCTAGACAG-SGGGCCTTGCTGGGCT 9086
                           -i    i    i? ? i  --            -?i            i 
  MER39B#LTR/ER        346 CATGCTCAGAGAGGCCAAGAAGAATCTAGACAGACAGGCCTTGCTGGGTT 395

  Human_rDNA_Co       9087 TCCCCAC 9093
                                  
  MER39B#LTR/ER        396 TCCCCAC 402

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 28.06
Transitions / transversions = 1.20 (12/10)
Gap_init rate = 0.04 (4 / 100), avg. gap size = 1.50 (6 / 4)


640 26.66 1.87 6.23 Human_rDNA_Consensus_(Short)_IGS 9280 9547 (17157) L1PREC2_3end#LINE/L1 643 899 (8) m_b1s551i1 38

  Human_rDNA_Co       9280 AAGATCAAATACCGCNGTGTTCTCATCTAGAAGTGGGAACTTACAGATGA 9329
                             i i          ?-        ii  v        i  v vv     
  L1PREC2_3end#        643 AAAACCAAATACCGCA-TGTTCTCACTTATAAGTGGGAGCTAAATGATGA 691

  Human_rDNA_Co       9330 CAGTTCTTGCATGGGCAGAACGAGGGGGMCGG-GGAC-CGGAAGCCTGCT 9377
                           v ii? ----    i  v  v      i? ii-i   - v ii    i  
  L1PREC2_3end#        692 GAACNC----ATGGACACAAAGAGGGGAACAACAGACACTGGGGCCTACT 737

  Human_rDNA_Co       9378 TGAGGG-GAGGGGTGGAAGGAGAGACAGCTTCNAARAAAAAAAAAACACG 9426
                                 - ii      i     i  v  ----? ?? i      v ----
  L1PREC2_3end#        738 TGAGGGTGGAGGGTGGGAGGAGGGAGAG----GANCAGAAAAAATA---- 779

  Human_rDNA_Co       9427 AATACTGTCGGACACAGCACTGACTACC--GGTGATGAAATCATCTGCAC 9474
                           ---   i i  ii  vivi  v v    --     i     v     i  
  L1PREC2_3end#        780 ---ACTATTGGGTACTAGGCTTAGTACCTGGGTGACGAAATAATCTGTAC 826

  Human_rDNA_Co       9475 ACTGAACACCCCCTCCACAAGTTTACCTATGTCACAGTCTTGCTCATGTA 9524
                            vii   v   vivv   i           i v   iv i   v      
  L1PREC2_3end#        827 AACAAACCCCCGTGACACGAGTTTACCTATATAACAAACCTGCACATGTA 876

  Human_rDNA_Co       9525 TGCTTGAGCGACAAATAAAAGTT 9547
                           iv i   i vvv           
  L1PREC2_3end#        877 CCCCTGAACCTAAAATAAAAGTT 899

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 32.08
Transitions / transversions = 1.41 (38/27)
Gap_init rate = 0.07 (20 / 267), avg. gap size = 1.05 (21 / 20)


16 9.12 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 9551 9575 (17129) (GA)n#Simple_repeat 1 25 (0) m_b1s252i12 39

  Human_rDNA_Co       9551 GAGAGAAARAGAGGGAGAGAGAGAG 9575
                                 i ?    i           
  (GA)n#Simple_          1 GAGAGAGAGAGAGAGAGAGAGAGAG 25

Matrix = Unknown
Transitions / transversions = 1.00 (2/0)
Gap_init rate = 0.00 (0 / 24), avg. gap size = 0.0 (0 / 0)

31 0.00 2.86 0.00 Human_rDNA_Consensus_(Short)_IGS 9585 9619 (19758) (GA)n#Simple_repeat 1 36 (0) c_b1s251i15 39

  Human_rDNA_Co       9585 GAGAGAGAGAGAGAGAGRGAGAGAGA-AGAGAGAGA 9619
                                            ?        -         
  (GA)n#Simple_          1 GAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGA 36

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.03 (1 / 34), avg. gap size = 1.00 (1 / 1)


1404 14.93 5.15 0.99 Human_rDNA_Consensus_(Short)_IGS 9713 10003 (18996) C AluSx#SINE/Alu (0) 312 10 c_b1s352i2 40

  Human_rDNA_Co       9713 TTCTTCTTCTTCTTCTTTNTTTTTTTTTTTG-GACTGAGTCTCTNGNTCT 9761
                             i  i  i  i  i   ?            -   v       -- ?   
C AluSx#SINE/Al        312 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTC--GCTCT 265

  Human_rDNA_Co       9762 GTCACCCAGGCTGCGGCGCGGTGNGCGC-CTCNNGGCTCACTGAAACCTC 9810
                              i         vi i  i   -    -v  ??         v      
C AluSx#SINE/Al        264 GTCGCCCAGGCTGGAGTGCAGTG-GCGCGATCTCGGCTCACTGCAACCTC 216

  Human_rDNA_Co       9811 TGCTTCCCGGGTTCCAGTGATTCTTCTTCC------------GTAGCTGG 9848
                           i  i          v  i      i  v  ------------        
C AluSx#SINE/Al        215 CGCCTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGG 166

  Human_rDNA_Co       9849 GATTACAGGTGC-CACCATGACGGCCGGCTCATCGTTCTATTTTTAGTAG 9897
                                    i  - i   iv   v      v  iv  v            
C AluSx#SINE/Al        165 GATTACAGGCGCGCGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAG 116

  Human_rDNA_Co       9898 AGACGGGTTTTCTCCACGTTGGCCNCGCTGGTCTCGAACTCCTGACCACA 9947
                                  v    v   i       ?v                     v  
C AluSx#SINE/Al        115 AGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCA 66

  Human_rDNA_Co       9948 AATGANCCACCTTCCTGGGCCTCCCAAAGTGCTGGRACGACAGGCCTGAG 9997
                           ii   ?  i  iv   v                  ? iv      v    
C AluSx#SINE/Al         65 GGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAG 16

  Human_rDNA_Co       9998 CCGCCG 10003
                             i   
C AluSx#SINE/Al         15 CCACCG 10

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 14.39
Transitions / transversions = 1.26 (24/19)
Gap_init rate = 0.02 (7 / 290), avg. gap size = 2.57 (18 / 7)


1300 15.50 1.62 0.80 Human_rDNA_Consensus_(Short)_IGS 10287 10509 (18536) AluSx#SINE/Alu 64 288 (24) c_b1s352i3 41

  Human_rDNA_Co      10287 CCCGAGGTCAGGAGNTNGAGACCAGCCCG-CCMACGTGGTGAAACCCCGT 10335
                             i           ? ?          i -  ?  i              
  AluSx#SINE/Al         64 CCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAACCCCGT 113

  Human_rDNA_Co      10336 CTCTACTGAAAATMTGAAATGGAGTCAG-CGTGG-GGCAGGCACCTGTAA 10383
                                  i     ?ii   vvv  i i -     -   iv  i       
  AluSx#SINE/Al        114 CTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCCTGTAA 163

  Human_rDNA_Co      10384 CCCCAGCTACTCGGGAGGCTGGGGTGGAAGAATTGCTTGAACCTGGCAGG 10433
                           i                    i  ii i     i         i  v   
  AluSx#SINE/Al        164 TCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCGGGAGG 213

  Human_rDNA_Co      10434 CGGAGGCTGCAGTGACCCAAGATCGCA-CACTGCACTACAGCCTGGGCGA 10482
                                 i        v  i       i-         v            
  AluSx#SINE/Al        214 CGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTGGGCGA 263

  Human_rDNA_Co      10483 CAGAGTGRGAGACCGGTTCTCAGATAA 10509
                                i ?  vv   --     i v  
  AluSx#SINE/Al        264 CAGAGCGAGACTCCG--TCTCAAAAAA 288

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 13.35
Transitions / transversions = 2.20 (22/10)
Gap_init rate = 0.03 (6 / 222), avg. gap size = 1.00 (6 / 6)


52 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 10510 10556 (18821) (ATAC)n#Simple_repeat 1 47 (0) c_b1s251i16 42

  Human_rDNA_Co      10510 ATACATACATACATACATACATACATACATACATACATACATACATA 10556
                                                                          
  (ATAC)n#Simpl          1 ATACATACATACATACATACATACATACATACATACATACATACATA 47

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 46), avg. gap size = 0.0 (0 / 0)


1300 15.50 1.62 0.80 Human_rDNA_Consensus_(Short)_IGS 10557 10579 (18466) AluSx#SINE/Alu 289 311 (1) c_b1s352i3 41

  Human_rDNA_Co      10557 GATATAAARAAGRAAAAAAAAAA 10579
                           i v v   ?  i?          
  AluSx#SINE/Al        289 AAAAAAAAAAAAAAAAAAAAAAA 311

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 13.35
Transitions / transversions = 1.00 (2/2)
Gap_init rate = 0.00 (0 / 22), avg. gap size = 0.0 (0 / 0)


42 22.45 6.00 0.95 Human_rDNA_Consensus_(Short)_IGS 10630 10929 (16391) (TCTG)n#Simple_repeat 1 315 (0) m_b1s252i13 43

  Human_rDNA_Co      10630 TCTCTCTGTCTGT-TTTCTCT-TTTNAGTC--TCTGTCTTTCTCTCTGT- 10674
                              v         - v   v - v ?v   --       v   v     -
  (TCTG)n#Simpl          1 TCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTC 50

  Human_rDNA_Co      10675 TCTCTTTC-CTCTGTCTGTCTGNCT-TCTGTC--TCTTTCTTTCTTTCTG 10720
                            v   v  -v            ?  -      --   v   v   v    
  (TCTG)n#Simpl         51 TGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTG 100

  Human_rDNA_Co      10721 TCTCTGTCCCTGT-TCTCT-TTTCTCCNTTCCTCTCTCTGTC-GAWTTTC 10767
                              v v vi    - v   - i v  i? iiv   v      - v? v  
  (TCTG)n#Simpl        101 TCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTC 150

  Human_rDNA_Co      10768 T-TNTCCTCTGWCAYTTTCTCWWTCTGTCTCNTTCTCTNTCTNTCCNCNN 10816
                            - ? -v    ? v? i v  ??       v?i v   ?   ?  i?i??
  (TCTG)n#Simpl        151 TGTCT-GTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCT 199

  Human_rDNA_Co      10817 NTCT-TC-CTCTRTCTGTGTYTTTCNCTGTCTG-ATCTCTGTCAATCTCT 10863
                           ?   -  -v   ?     v ? i v?       -v v      vi   v 
  (TCTG)n#Simpl        200 GTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGT 249

  Human_rDNA_Co      10864 CTNTCTGTCTGTCTCTYTTTGATCTCTRTCTGWCTGTCT-TCYTCYCTGT 10912
                             ?           v ? v -v v   ?    ?      -  - v?    
  (TCTG)n#Simpl        250 CTGTCTGTCTGTCTGTCTGT-CTGTCTGTCTGTCTGTCTGTC-TGTCTGT 297

  Human_rDNA_Co      10913 NNTACT-TCTGTCTGTCT 10929
                           ??vv  -           
  (TCTG)n#Simpl        298 CTGTCTGTCTGTCTGTCT 315

Matrix = Unknown
Transitions / transversions = 0.27 (11/41)
Gap_init rate = 0.06 (19 / 299), avg. gap size = 1.11 (21 / 19)


16 14.37 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 11306 11336 (15984) (TCTCTC)n#Simple_repeat 1 31 (0) m_b1s252i14 44

  Human_rDNA_Co      11306 TCTGTCGATCTCTCTCTCTCTCTCTGTCTCT 11336
                              v  vv                 v     
  (TCTCTC)n#Sim          1 TCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 31

Matrix = Unknown
Transitions / transversions = 0.00 (0/4)
Gap_init rate = 0.00 (0 / 30), avg. gap size = 0.0 (0 / 0)


13 3.79 0.00 9.68 Human_rDNA_Consensus_(Short)_IGS 11435 11468 (15852) (TCTTTC)n#Simple_repeat 1 31 (0) m_b1s252i16 45

  Human_rDNA_Co      11435 TCTYTCTCTTTCTCTCTGTCTCTGTCTCTTNTCT 11468
                              ?           - -     v      -   
  (TCTTTC)n#Sim          1 TCTTTCTCTTTCTCT-T-TCTCTTTCTCTT-TCT 31

Matrix = Unknown
Transitions / transversions = 0.00 (0/1)
Gap_init rate = 0.09 (3 / 33), avg. gap size = 1.00 (3 / 3)


332 13.21 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 11687 11739 (15581) MER39B#LTR/ERV1 355 407 (246) m_b1s502i3 46

  Human_rDNA_Co      11687 AGAGGCCGAGAGGAATCTAGACAGGCGGGCCTTNCTGGGCTTCCCCACTT 11736
                                  i   i            i i      ?     i         i
  MER39B#LTR/ER        355 AGAGGCCAAGAAGAATCTAGACAGACAGGCCTTGCTGGGTTTCCCCACTC 404

  Human_rDNA_Co      11737 GGT 11739
                           i  
  MER39B#LTR/ER        405 AGT 407

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 15.68
Transitions / transversions = 1.00 (7/0)
Gap_init rate = 0.00 (0 / 52), avg. gap size = 0.0 (0 / 0)


871 15.63 1.52 3.08 Human_rDNA_Consensus_(Short)_IGS 11887 12084 (15236) AluSx#SINE/Alu 104 298 (14) m_b1s356i2 47

  Human_rDNA_Co      11887 GAAACCCCGTCTCTACTAAAAATA-AAAGCTGAGTCGGGGGCGGTGGGGC 11935
                                                   -   iv v  i    v i     v  
  AluSx#SINE/Al        104 GAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGC 153

  Human_rDNA_Co      11936 AGGCCCTGTAATGCCAGCTCCTCGGGAGGCTGAGNGGGGGAGAATCGCTT 11985
                           iv -        v      v              - vi            
  AluSx#SINE/Al        154 GCG-CCTGTAATCCCAGCTACTCGGGAGGCTGAG-GCAGGAGAATCGCTT 201

  Human_rDNA_Co      11986 GAACCAGGGA-GCGGAGGCTGCAGGGAGCCGAGATCCNGCCACTGCACT- 12033
                                v    -       i     v           v?           -
  AluSx#SINE/Al        202 GAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTC 251

  Human_rDNA_Co      12034 CGGCCCAGGCTGTAGAGTGAGTGAGACTCGGTCTCTAAATAAATAMGGAA 12083
                            i   ii   ----  vv   i       v     v   v   v ?ii  
  AluSx#SINE/Al        252 CAGCCTGGGC----GACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAA 297

  Human_rDNA_Co      12084 A 12084
                            
  AluSx#SINE/Al        298 A 298

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 15.89
Transitions / transversions = 0.71 (12/17)
Gap_init rate = 0.05 (9 / 197), avg. gap size = 1.00 (9 / 9)


14 8.65 10.81 0.00 Human_rDNA_Consensus_(Short)_IGS 13001 13037 (14283) (TTGTTC)n#Simple_repeat 1 41 (0) m_b1s252i17 48

  Human_rDNA_Co      13001 TTGTT-TTGTT-TCGTTC-TGTT-TTGTTTTTGTTCGTGTT 13037
                                -     - i    -    -     i      v    
  (TTGTTC)n#Sim          1 TTGTTCTTGTTCTTGTTCTTGTTCTTGTTCTTGTTCTTGTT 41

Matrix = Unknown
Transitions / transversions = 2.00 (2/1)
Gap_init rate = 0.11 (4 / 36), avg. gap size = 1.00 (4 / 4)


26 2.56 2.38 0.00 Human_rDNA_Consensus_(Short)_IGS 13253 13294 (16083) (TTG)n#Simple_repeat 1 43 (0) c_b1s251i17 49

  Human_rDNA_Co      13253 TTGTTGNTGTTGTNGTTGTTGTCGTTGTTGTTGTTG-TGTTGT 13294
                                 ?      ?        i             -      
  (TTG)n#Simple          1 TTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGTTGT 43

Matrix = Unknown
Transitions / transversions = 1.00 (1/0)
Gap_init rate = 0.02 (1 / 41), avg. gap size = 1.00 (1 / 1)


24 13.49 2.50 0.82 Human_rDNA_Consensus_(Short)_IGS 13406 13525 (13836) (CT)n#Simple_repeat 1 122 (0) m_b1s252i18 50

  Human_rDNA_Co      13406 CTCTCTCTCTCTNTCTGTCT-TCNNNNTCTCTNTCTCTGTCTGTCT-TNT 13453
                                       ?   v   -  ????     ?     v   v   - ? 
  (CT)n#Simple_          1 CTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCT 50

  Human_rDNA_Co      13454 NTNTNTCTCTCTGNCT-TCTCNTCNNTNNNMCTGWMTCTCTCNCTTCCTG 13502
                           ? ? ?       v?  -    -  ?? ????  v??      ?  ii  v
  (CT)n#Simple_         51 CTCTCTCTCTCTCTCTCTCTC-TCTCTCTCTCTCTCTCTCTCTCTCTCTC 99

  Human_rDNA_Co      13503 TCTGTATGTCTCTCTCTNTTTCT 13525
                              v v v         ? i   
  (CT)n#Simple_        100 TCTCTCTCTCTCTCTCTCTCTCT 122

Matrix = Unknown
Transitions / transversions = 0.33 (3/9)
Gap_init rate = 0.03 (4 / 119), avg. gap size = 1.00 (4 / 4)


51 21.39 3.54 2.86 Human_rDNA_Consensus_(Short)_IGS 13621 13822 (13582) (TCTG)n#Simple_repeat 1 206 (249) m_b1s252i19 51

  Human_rDNA_Co      13621 TCTTTCTGTCTCTGTNTNTCTCTCTCTCTMTGTGTGTCTGTCT-TCTGTC 13669
                              v       v v ? ? v   v   v ?   v         -      
  (TCTG)n#Simpl          1 TCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTC 50

  Human_rDNA_Co      13670 T-TNT-TCT-TTNACCKGTCTGTCTGTCTGTC--TCTNTCTGTCCTTNCN 13714
                            - ? -   - i?ii ?               --   ?     -  v? ?
  (TCTG)n#Simpl         51 TGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGT-CTGTCT 99

  Human_rDNA_Co      13715 CCNCGACTGTTTCTCTNTCTNTGTCTNTNKATCTGTCTGT-T-TCTCTCT 13762
                           vi?i v    i v   ?  --     ? ??i         - -   v   
  (TCTG)n#Simpl        100 GTCTGTCTGTCTGTCTGTC--TGTCTGTCTGTCTGTCTGTCTGTCTGTCT 147

  Human_rDNA_Co      13763 GTCTNTNT-NNNNTNTTNCTCTCTGTCNCTNTNNNNTCTCTCTCTNTCTN 13811
                               ? ? -???? ? v?  v      ?v ? -??? v   v   ?   -
  (TCTG)n#Simpl        148 GTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCT-GTCTGTCTGTCTGTCT- 195

  Human_rDNA_Co      13812 TTCTTGGGGAR 13822
                           v   vvvv v?
  (TCTG)n#Simpl        196 GTCTGTCTGTC 206

Matrix = Unknown
Transitions / transversions = 0.30 (7/23)
Gap_init rate = 0.06 (13 / 201), avg. gap size = 1.08 (14 / 13)


46 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 13823 13866 (15511) (TG)n#Simple_repeat 1 44 (0) c_b1s251i18 52

  Human_rDNA_Co      13823 TGTGTGTGTGTGTGTGTRTGTGTGTGTGTGTGTGTGTGTGTGTG 13866
                                            ?                          
  (TG)n#Simple_          1 TGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTG 44

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 43), avg. gap size = 0.0 (0 / 0)


51 21.39 3.54 2.86 Human_rDNA_Consensus_(Short)_IGS 13867 14115 (13289) (TCTG)n#Simple_repeat 207 454 (1) m_b1s252i19 53

  Human_rDNA_Co      13867 GGTTGCCT-TCTGTCTTAMTCTCTNCCTGTCTGCCTG-CTGTTTGTC-CN 13913
                            vi  i  -       vv? v   ?i       i   -    i    -v?
  (TCTG)n#Simpl        207 GTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGT 256

  Human_rDNA_Co      13914 NNCNCTGTCNNCCTTCCTGTCTGTTYNTMTCNNNNCNCTCTGTC--TCTG 13961
                           ??v?     ??i  vi       - -? ?  -??? ?v      --    
  (TCTG)n#Simpl        257 CTGTCTGTCTGTCTGTCTGTCTG-T-CTGTC-TGTCTGTCTGTCTGTCTG 303

  Human_rDNA_Co      13962 TCTCTCTGTCTNTNCGTCTGTCTCTTTATCT-NCGGTCTGTCTCTTTATC 14010
                              v       ? ?i        v i i   -? v        v i i  
  (TCTG)n#Simpl        304 TCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTC 353

  Human_rDNA_Co      14011 TGTCTCTCTCTCTTTNCTGNNNTNCTCNTGTTNTNNCTCTCTGTCTGTCT 14060
                                v   v   v -   -?? -v  -  - ? ??  v           
  (TCTG)n#Simpl        354 TGTCTGTCTGTCTGT-CTG-TCT-GTC-TG-TCTGTCTGTCTGTCTGTCT 398

  Human_rDNA_Co      14061 CTGTCTCTGTCTCNGTCTCTCTCTCTCTCTCTCTCTCTCTGTCTGTCTGT 14110
                           v v v       v?v v   v   v   v   v   v             
  (TCTG)n#Simpl        399 GTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGT 448

  Human_rDNA_Co      14111 C-GTCT 14115
                            -    
  (TCTG)n#Simpl        449 CTGTCT 454

Matrix = Unknown
Transitions / transversions = 0.43 (12/28)
Gap_init rate = 0.06 (14 / 248), avg. gap size = 1.07 (15 / 14)

67 14.94 0.56 4.62 Human_rDNA_Consensus_(Short)_IGS 13951 14130 (13274) (CTCTGT)n#Simple_repeat 1 173 (0) m_b1s252i20 53

  Human_rDNA_Co      13951 CTCTGTCTCTGTCTCTCTGTCTNTNCGTCTGTCTCTTTATCTNCGGTCTG 14000
                                           v v   ? - -         v v   -vvv    
  (CTCTGT)n#Sim          1 CTCTGTCTCTGTCTCTGTCTCTGT-C-TCTGTCTCTGTCTCT-GTCTCTG 47

  Human_rDNA_Co      14001 TCTCTTTATCTGTCTCTCTCTCTTTNCTGNNNTNCTCNTGT-TNTNNCTC 14049
                                v v         v     v -  -??? -   -   - ? ??   
  (CTCTGT)n#Sim         48 TCTCTGTCTCTGTCTCTGTCTCTGT-CT-CTGT-CTC-TGTCTCTGTCTC 93

  Human_rDNA_Co      14050 TCTGTCTGTCTCTGTCTCTGTCTCNGTCTCTCTCTCTCTCTCTCTCTCTC 14099
                            v v                    ?      v     v     v     v
  (CTCTGT)n#Sim         94 TGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTG 143

  Human_rDNA_Co      14100 TGTCTGTCTGTCGTCTCGGTCTCTGGCTCTG 14130
                            v       v -     v       v     
  (CTCTGT)n#Sim        144 TCTCTGTCTCT-GTCTCTGTCTCTGTCTCTG 173

Matrix = Unknown
Transitions / transversions = 0.00 (0/21)
Gap_init rate = 0.05 (9 / 179), avg. gap size = 1.00 (9 / 9)


227 32.75 0.00 2.73 Human_rDNA_Consensus_(Short)_IGS 14505 14617 (12787) C L1MD2_3end#LINE/L1 (585) 521 412 m_b1s551i2 54

  Human_rDNA_Co      14505 TTGTGGAACCACTGGCYCTTTGAAAAAAATCCCAGAAGTGGTTTTGGCNT 14554
                               vv     i vi ? v     ii v  ii---ii  v    iviv? 
C L1MD2_3end#LI        521 TTGTTTAACCATTCACCCGTTGAAGGACATTT---GGGTTGTTTCCAGTT 475

  Human_rDNA_Co      14555 TTTGGCTAGGAGGCCTAAGCCTGCTGAGAACTTTCCTGCCCAGGATCCTG 14604
                                   vv v vv   iv     iv    v   v  iv    v ii  
C L1MD2_3end#LI        474 TTTGGCTATTACGAATAAAGCTGCTATGAACATTCGTGTACAGGTTTTTG 425

  Human_rDNA_Co      14605 TGTGACCAAAAGT 14617
                                v  v    
C L1MD2_3end#LI        424 TGTGAACATAAGT 412

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 44.27
Transitions / transversions = 0.71 (15/21)
Gap_init rate = 0.03 (3 / 112), avg. gap size = 1.00 (3 / 3)


14 11.53 0.00 3.45 Human_rDNA_Consensus_(Short)_IGS 15040 15069 (12335) (CCACC)n#Simple_repeat 1 29 (0) m_b1s252i21 55

  Human_rDNA_Co      15040 CCGCCCCACCNCCACCACACCCCACACCAC 15069
                             i       -     v        v    
  (CCACC)n#Simp          1 CCACCCCACC-CCACCCCACCCCACCCCAC 29

Matrix = Unknown
Transitions / transversions = 0.50 (1/2)
Gap_init rate = 0.03 (1 / 29), avg. gap size = 1.00 (1 / 1)


15 22.84 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 15137 15178 (12226) (GGGG)n#Simple_repeat 1 42 (0) m_b1s252i23 56

  Human_rDNA_Co      15137 GGTGGGAGGGGNGGGGGGGGGGGTGGGTTGGGGGTTGTGGGG 15178
                             v   i    ?           v   vv     vv v    
  (GGGG)n#Simpl          1 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 42

Matrix = Unknown
Transitions / transversions = 0.14 (1/7)
Gap_init rate = 0.00 (0 / 41), avg. gap size = 0.0 (0 / 0)


813 12.41 20.00 0.49 Human_rDNA_Consensus_(Short)_IGS 15398 15567 (11837) C AluSx#SINE/Alu (9) 303 101 m_b1s357i3 57

  Human_rDNA_Co      15398 TTTGTGTGTTTGTTTGTTTCTGAGATGGAGTCTTGCTCTGTC-CCCAGGC 15446
                              v v v   v   v   i     i       i        -       
C AluSx#SINE/Al        303 TTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGC 254

  Human_rDNA_Co      15447 TGGAGTGCAGTGGCGTGATCTCAGCTCACTGGAACCTCTGCCTCCTGGGT 15496
                                          i      i        v      i      i    
C AluSx#SINE/Al        253 TGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCCGCCTCCCGGGT 204

  Human_rDNA_Co      15497 TCAAGTGATTCTCCTGTCTCAGCCA------------------------- 15521
                                i          i       v-------------------------
C AluSx#SINE/Al        203 TCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGC 154

  Human_rDNA_Co      15522 ----CNCCATGGCCGGCTCANTTT----TTTTTGGTAGACACNGGGTTTT 15563
                           ---- ?   i v      v ?   ----     i     v  ?   -   
C AluSx#SINE/Al        153 GCGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGG-TTT 105

  Human_rDNA_Co      15564 CACC 15567
                               
C AluSx#SINE/Al        104 CACC 101

Matrix = 18p53g.matrix
Kimura (with divCpGMod) = 8.81
Transitions / transversions = 1.10 (11/10)
Gap_init rate = 0.03 (5 / 169), avg. gap size = 7.00 (35 / 5)


228 20.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 15571 15620 (11784) C LTR54#LTR/ERV1 (40) 470 421 m_b1s502i4 58

  Human_rDNA_Co      15571 TTCATTGGTTTTCACTGGAGATTCTAGATTCGAGCCACACCTCATTCCNT 15620
                             v     i   i i v v         v   i  v           i? 
C LTR54#LTR/ERV        470 TTAATTGGCTTTTATTTGCGATTCTAGAATCGGGCAACACCTCATTCTAT 421

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 23.98
Transitions / transversions = 1.00 (5/5)
Gap_init rate = 0.00 (0 / 49), avg. gap size = 0.0 (0 / 0)


1479 10.41 5.88 0.33 Human_rDNA_Consensus_(Short)_IGS 16364 16652 (12477) C AluY#SINE/Alu (6) 305 1 c_b1s352i4 59

  Human_rDNA_Co      16364 TTTATTTTTTAATTTATTTCTCTTGGGGCGN----TCN-GCTNCCGCCCA 16408
                              v      vv   v   i i   i i  ?----  ?-v  ?i      
C AluY#SINE/Alu        305 TTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCA 256

  Human_rDNA_Co      16409 GGCTGGAGNGNA-TGGTGTGATCTCG-CTCACTGCAA-CNNCACCTCCCT 16455
                                   ? ? -   i i       -          - ?? i      -
C AluY#SINE/Alu        255 GGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCGCCTCCC- 207

  Human_rDNA_Co      16456 GGGTTCAAGC--GNNTCCTGCCTCAGN-TCCCGAGTAGCTGGGACTACAG 16502
                                  v  --v??           ?-                      
C AluY#SINE/Alu        206 GGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAG 157

  Human_rDNA_Co      16503 GTGCCC--CACCACCCCCAGCTAATCTT--ATACTTTTAATAGAGACGGG 16548
                            i    --      v   i      i  --i  i     i          
C AluY#SINE/Alu        156 GCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGG 107

  Human_rDNA_Co      16549 -TTTCACCGTGNTCGGCCSGATGGTCTCGATCTCTTGACCTCGTGACCCG 16597
                           -          ? v v v?               i           i   
C AluY#SINE/Alu        106 GTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCG 57

  Human_rDNA_Co      16598 CCC-CCTCGGCCTCCCAAAGTGCTGGGATGACAGGCGTGAGCCACTGAGC 16646
                              -                         v               i v  
C AluY#SINE/Alu         56 CCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGC 7

  Human_rDNA_Co      16647 CCGGCC 16652
                                 
C AluY#SINE/Alu          6 CCGGCC 1

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 9.50
Transitions / transversions = 1.31 (17/13)
Gap_init rate = 0.04 (12 / 288), avg. gap size = 1.50 (18 / 12)


486 22.18 1.70 15.48 Human_rDNA_Consensus_(Short)_IGS 19898 20063 (7657) AluJb#SINE/Alu 137 281 (31) m_b1s357i4 60

  Human_rDNA_Co      19898 GCCGGGTGCTGGTGGCTCACGCCTGTAA-CCCAACACTTTGGGAGGCCGR 19946
                                 i -       v i        i-    i vvi i       i ?
  AluJb#SINE/Al        137 GCCGGGCG-TGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGA 185

  Human_rDNA_Co      19947 GG--GTRGGATCCCTCGAGGAANGCCCTAACCCTGGGGAGGTTGAGGTTG 19994
                             -- v?     v  i   -----------   --       i    i  
  AluJb#SINE/Al        186 GGCGGGAGGATCGCTTGAG-----------CCC--GGGAGGTCGAGGCTG 222

  Human_rDNA_Co      19995 CAGTGAGTGAGCCATAGTTATGTCACTGTGCTCCAGTCTGGGCNNAAAGA 20044
                                 ----   i ii iii i     ii      i      -----  
  AluJb#SINE/Al        223 CAGTGA----GCCGTGATCGCGCCACTGCACTCCAGCCTGGGC-----GA 263

  Human_rDNA_Co      20045 CAAGAATGAGGCCCTGCCA 20063
                            -   ii   i     i v
  AluJb#SINE/Al        264 C-AGAGCGAGACCCTGTCT 281

Matrix = 18p53g.matrix
Kimura (with divCpGMod) = 20.16
Transitions / transversions = 4.00 (24/6)
Gap_init rate = 0.16 (26 / 165), avg. gap size = 1.04 (27 / 26)


31 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 20064 20092 (9285) (CAGG)n#Simple_repeat 1 29 (0) c_b1s251i19 61

  Human_rDNA_Co      20064 CAGGCAGGCAGGCAGGCAGGCAGGCAGGC 20092
                                                        
  (CAGG)n#Simpl          1 CAGGCAGGCAGGCAGGCAGGCAGGCAGGC 29

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 28), avg. gap size = 0.0 (0 / 0)


1534 14.09 2.03 1.35 Human_rDNA_Consensus_(Short)_IGS 20162 20456 (8701) C AluSx#SINE/Alu (15) 297 1 c_b1s352i5 62

  Human_rDNA_Co      20162 TTTTTTTTTTCCCTTCGGACGGAGTTTCACTCTTGGTGCCNCGGCTGGAG 20211
                                     iii  vi        i  i    - vi   ?v        
C AluSx#SINE/Al        297 TTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCT-GTCGCCCAGGCTGGAG 249

  Human_rDNA_Co      20212 TGCAGTGGCACCATCTCGGCTCNCCGCGCAACCTCCACCTCCAGCGTTCA 20261
                                    i v          ? i  --       i     v v     
C AluSx#SINE/Al        248 TGCAGTGGCGCGATCTCGGCTCACTGC--AACCTCCGCCTCCCGGGTTCA 201

  Human_rDNA_Co      20262 AGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGGAGGAG 20311
                                                   i                   viv v 
C AluSx#SINE/Al        200 AGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCGCG 151

  Human_rDNA_Co      20312 CCACCACANCCAGCTGA-TTTTGTATTGTTAGTAGAGACGGCATTTCTCC 20360
                                  i?  i   i -         v             vi    v  
C AluSx#SINE/Al        150 CCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACC 101

  Human_rDNA_Co      20361 ATGTGGGTCAGGCTGGTCTCGAACTGGNG-CCCCAGTGGATCTG-CCGCC 20408
                               v  i                 vv? -  i   vv    i -     
C AluSx#SINE/Al        100 ATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCGCCCGCC 51

  Human_rDNA_Co      20409 T--GCCTCCCAAAGTGCTGGGGTGACAGGCG-GAGCCATCCGTGACTGGC 20455
                            --                  i v       -      -   i v i   
C AluSx#SINE/Al         50 TCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCA-CCGCGCCCGGC 2

  Human_rDNA_Co      20456 C 20456
                            
C AluSx#SINE/Al          1 C 1

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 11.71
Transitions / transversions = 1.16 (22/19)
Gap_init rate = 0.03 (9 / 294), avg. gap size = 1.11 (10 / 9)


43 11.83 1.92 6.00 Human_rDNA_Consensus_(Short)_IGS 20466 20545 (7769) (TTTA)n#Simple_repeat 1 77 (23) m_b1s252i24 63

  Human_rDNA_Co      20466 TTTATTTATTTATTT-TTTAATTATTTTACTTTTTTAGTTTTCCATTTTA 20514
                                          -    v   -    i  v    v  v ii -   -
  (TTTA)n#Simpl          1 TTTATTTATTTATTTATTTATTTA-TTTATTTATTTATTTATTTA-TTT- 47

  Human_rDNA_Co      20515 ATCTATTTATTTATTTACATTTATTTATTTA- 20545
                             i             --             -
  (TTTA)n#Simpl         48 ATTTATTTATTTATTT--ATTTATTTATTTAT 77

Matrix = Unknown
Transitions / transversions = 1.00 (4/4)
Gap_init rate = 0.09 (7 / 79), avg. gap size = 1.00 (7 / 7)


2029 8.31 3.32 0.00 Human_rDNA_Consensus_(Short)_IGS 20546 20846 (8311) C AluY#SINE/Alu (0) 311 1 c_b1s352i6 64

  Human_rDNA_Co      20546 TTTATTTATTTACTTATTTATTTATTTTCCGAGACAGACTCTCGCTCTGC 20595
                              v   v   vi  v   v   v    ii     i  v          i
C AluY#SINE/Alu        311 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGT 262

  Human_rDNA_Co      20596 TGCCCAGGCTGGAGTGCAG---CGTGATCTCGNCTCACTGCAAGCTCCGC 20642
                           i                  ---  i       ?                 
C AluY#SINE/Alu        261 CGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCGC 212

  Human_rDNA_Co      20643 CTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGAC 20692
                                                                i            
C AluY#SINE/Alu        211 CTCCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGAC 162

  Human_rDNA_Co      20693 TACAG--GCCCGCCACCGTGCCSGGTT-ACTTTTTGTATTTTGAGTAGAG 20739
                                --          ii   ?  i - i            v       
C AluY#SINE/Alu        161 TACAGGCGCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAG 112

  Human_rDNA_Co      20740 ATGGGGTTTCACTGTGGTAGCCAGGATGGTCTCGATCTC--GACC-CGTG 20786
                            i          i   v                      --    -    
C AluY#SINE/Alu        111 ACGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTG 62

  Human_rDNA_Co      20787 ATCCGYCCACCTCGGCCTCCCAAAGTGCTGGGATGACAGGCGTGAGCCAC 20836
                                ?  i                         v               
C AluY#SINE/Alu         61 ATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCAC 12

  Human_rDNA_Co      20837 CGC-CCCGGCC 20846
                              -       
C AluY#SINE/Alu         11 CGCGCCCGGCC 1

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 6.23
Transitions / transversions = 1.50 (15/10)
Gap_init rate = 0.02 (6 / 300), avg. gap size = 1.67 (10 / 6)


43 11.83 1.92 6.00 Human_rDNA_Consensus_(Short)_IGS 20847 20869 (7445) (TTTA)n#Simple_repeat 78 99 (1) m_b1s252i24 65

  Human_rDNA_Co      20847 TATTTATCTATTTATTAACTTTA 20869
                                  i        v -    
  (TTTA)n#Simpl         78 TATTTATTTATTTATTTA-TTTA 99

Matrix = Unknown
Transitions / transversions = 1.00 (1/1)
Gap_init rate = 0.05 (1 / 22), avg. gap size = 1.00 (1 / 1)


22 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 20893 20918 (7396) (T)n#Simple_repeat 1 26 (0) m_b1s252i25 66

  Human_rDNA_Co      20893 TTTTNTTTTTTTTTTTTTTTTTTTTT 20918
                               ?                     
  (T)n#Simple_r          1 TTTTTTTTTTTTTTTTTTTTTTTTTT 26

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 25), avg. gap size = 0.0 (0 / 0)


19 25.19 0.00 1.75 Human_rDNA_Consensus_(Short)_IGS 21742 21799 (6515) (AAAT)n#Simple_repeat 1 57 (0) m_b1s252i27 67

  Human_rDNA_Co      21742 AAACAGATAAATAAATAAAATAACACAAAAGTAACTAACTAAATAAAATA 21791
                              i i             vv  i v v  i   v   v     -     
  (AAAT)n#Simpl          1 AAATAAATAAATAAATAAATAAATAAATAAATAAATAAATAAAT-AAATA 49

  Human_rDNA_Co      21792 AGTCAATA 21799
                            i v    
  (AAAT)n#Simpl         50 AATAAATA 57

Matrix = Unknown
Transitions / transversions = 0.71 (5/7)
Gap_init rate = 0.02 (1 / 57), avg. gap size = 1.00 (1 / 1)


20 25.63 7.27 1.72 Human_rDNA_Consensus_(Short)_IGS 21741 21850 (6464) (CAATA)n#Simple_repeat 1 116 (0) m_b1s252i26 68

  Human_rDNA_Co      21741 CAA-ACAGATA-AATA-AATAAAATAACACAAAAGTA-ACTA-ACTA-AA 21784
                              -   -   -    -    v   -   vv v i  - v  - v  -  
  (CAATA)n#Simp          1 CAATACA-ATACAATACAATACAAT-ACAATACAATACAATACAATACAA 48

  Human_rDNA_Co      21785 TAAAATA-AGT-CAATACAACCCATTACAATACAATAAGATACGACACGA 21832
                             v    - i -        iv  v            vi    i i  i 
  (CAATA)n#Simp         49 TACAATACAATACAATACAATACAATACAATACAATACAATACAATACAA 98

  Human_rDNA_Co      21833 TAGGATGCGATAGGATAC 21850
                             vi  i i   vi    
  (CAATA)n#Simp         99 TACAATACAATACAATAC 116

Matrix = Unknown
Transitions / transversions = 0.92 (11/12)
Gap_init rate = 0.09 (10 / 109), avg. gap size = 1.00 (10 / 10)


74 2.63 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 21858 21936 (7441) (ATACA)n#Simple_repeat 1 79 (0) c_b1s251i20 69

  Human_rDNA_Co      21858 ATACAATACAATACGATAYGATACAATACAATACAATACAATACAATACA 21907
                                         i   ?i                              
  (ATACA)n#Simp          1 ATACAATACAATACAATACAATACAATACAATACAATACAATACAATACA 50

  Human_rDNA_Co      21908 ATACAATACAATACAATACAATACAATAC 21936
                                                        
  (ATACA)n#Simp         51 ATACAATACAATACAATACAATACAATAC 79

Matrix = Unknown
Transitions / transversions = 1.00 (2/0)
Gap_init rate = 0.00 (0 / 78), avg. gap size = 0.0 (0 / 0)


1692 14.18 2.35 0.66 Human_rDNA_Consensus_(Short)_IGS 21940 22216 (7061) AluSx#SINE/Alu 9 290 (22) c_b1s352i7 70

  Human_rDNA_Co      21940 GCGGTGGCTCATGCCTGTCATCCCGTCACTTTGGGATGCCGAGGTGGRC- 21988
                                      i      v     iv          v       i  ? -
  AluSx#SINE/Al          9 GCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCG 58

  Human_rDNA_Co      21989 -ATCACCTGAAGTC-GGAGTTGGAGACAAGCCCAACCAACATGGAGAAAT 22036
                           -         i   -      v     v    iii         v    i
  AluSx#SINE/Al         59 GATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAAC 108

  Human_rDNA_Co      22037 CCCGTCTCAATTGAAAATACAAAA-CTAGCCGGTNG--GTGGCACATGCC 22083
                                   v i i           -i       v? --     i ii   
  AluSx#SINE/Al        109 CCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGGCGCGCGCC 158

  Human_rDNA_Co      22084 TATAATCCCAGCTGCTAGGAAGGCTGAGGCAGGAGAATCGCTTGAACCTG 22133
                            i           i  v  i                            i 
  AluSx#SINE/Al        159 TGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCG 208

  Human_rDNA_Co      22134 GGAAGCGGAGGTTGCAGTGAGCCGAGATTGCGCCATCGC-CTCCAGTCTG 22182
                              i                        i      ii  -      i   
  AluSx#SINE/Al        209 GGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACTCCAGCCTG 258

  Human_rDNA_Co      22183 AGCAACAAGANGAGAAACTCCGTCTCAAAAATAA 22216
                           i  i   iii?   --               v  
  AluSx#SINE/Al        259 GGCGACAGAGCGAG--ACTCCGTCTCAAAAAAAA 290

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 13.08
Transitions / transversions = 2.80 (28/10)
Gap_init rate = 0.03 (8 / 276), avg. gap size = 1.12 (9 / 8)


36 4.82 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 22217 22259 (7118) (ATACATAC)n#Simple_repeat 1 43 (0) c_b1s251i21 71

  Human_rDNA_Co      22217 ATACATAAATAAATACATACATACATACATACATACATACATA 22259
                                  v   v                               
  (ATACATAC)n#S          1 ATACATACATACATACATACATACATACATACATACATACATA 43

Matrix = Unknown
Transitions / transversions = 0.00 (0/2)
Gap_init rate = 0.00 (0 / 42), avg. gap size = 0.0 (0 / 0)


1692 14.18 2.35 0.66 Human_rDNA_Consensus_(Short)_IGS 22260 22279 (6998) AluSx#SINE/Alu 291 310 (2) c_b1s352i7 70

  Human_rDNA_Co      22260 AATTAAAATAAATAAAAAAA 22279
                             vv    v   v       
  AluSx#SINE/Al        291 AAAAAAAAAAAAAAAAAAAA 310

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 13.08
Transitions / transversions = 0.00 (0/4)
Gap_init rate = 0.00 (0 / 19), avg. gap size = 0.0 (0 / 0)


1336 11.66 4.75 4.04 Human_rDNA_Consensus_(Short)_IGS 22303 22597 (6680) AluSx#SINE/Alu 9 305 (7) c_b1s352i8 72

  Human_rDNA_Co      22303 GNGGTGGCTCAAGCCTGTCATCCCT-CACTTTGGGAGGCCAAGGCSG-TG 22350
                            ?         v      v     v-              i    ? -i 
  AluSx#SINE/Al          9 GCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCG 58

  Human_rDNA_Co      22351 GATCA----AG---AGGCGGTC-AGACCAACAGGGCCAGTATGGTGAAAC 22392
                                ----  ---   v v  -      i vv     ii          
  AluSx#SINE/Al         59 GATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACATGGTGAAAC 108

  Human_rDNA_Co      22393 CCSNTCTCTACTCACAATACACAACATTAGNGGGGGCTGTGCTGTGCTGT 22442
                             ??        v v      v  -     ?v   --i   --   vi i
  AluSx#SINE/Al        109 CCCGTCTCTACTAAAAATACAAAA-ATTAGCCGGG--CGTG--GTGGCGC 153

  Human_rDNA_Co      22443 ACTGTCTGTAATCCCAGCTACT-GGGAGGCCGAGCTGAGGCAGGAGAATC 22491
                           i - i                 -       -----               
  AluSx#SINE/Al        154 GC-GCCTGTAATCCCAGCTACTCGGGAGGC-----TGAGGCAGGAGAATC 197

  Human_rDNA_Co      22492 GCTKGAACCTGGGAGGCGGAGGTTGCAGTGAGCCGAGATCRGCGCCACTG 22541
                              ?     i                              -         
  AluSx#SINE/Al        198 GCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATC-GCGCCACTG 246

  Human_rDNA_Co      22542 CAACCCAGCCTGGGCGACNA---GAGACTCCGTCTCCAAAATGAAAATGA 22588
                             vi              ?i---             v    vi    vi 
  AluSx#SINE/Al        247 CACTCCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAA 296

  Human_rDNA_Co      22589 AAAATGAAA 22597
                               vi   
  AluSx#SINE/Al        297 AAAAAAAAA 305

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 10.69
Transitions / transversions = 0.94 (16/17)
Gap_init rate = 0.06 (19 / 294), avg. gap size = 1.37 (26 / 19)


17 23.41 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 22631 22671 (6354) (A)n#Simple_repeat 1 41 (0) m_b1s252i28 73

  Human_rDNA_Co      22631 AAAAGAANAAAGAAAAAGAAAAAAACAACAAAACAGAACAA 22671
                               i  ?   i     i       v  v    v i  v  
  (A)n#Simple_r          1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA 41

Matrix = Unknown
Transitions / transversions = 1.00 (4/4)
Gap_init rate = 0.00 (0 / 40), avg. gap size = 0.0 (0 / 0)


19 10.11 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 23011 23042 (5983) (TTGCC)n#Simple_repeat 1 32 (0) m_b1s252i29 74

  Human_rDNA_Co      23011 TTGCCTTGCCTGGACTTGCCTGGCCTTGCCTT 23042
                                      v v       v          
  (TTGCC)n#Simp          1 TTGCCTTGCCTTGCCTTGCCTTGCCTTGCCTT 32

Matrix = Unknown
Transitions / transversions = 0.00 (0/3)
Gap_init rate = 0.00 (0 / 31), avg. gap size = 0.0 (0 / 0)


1434 14.40 0.79 1.19 Human_rDNA_Consensus_(Short)_IGS 23050 23069 (6283) C AluSx#SINE/Alu (1) 311 292 c_b1s352i9 75

  Human_rDNA_Co      23050 TTTCTTTCTTTATTACTTTC 23069
                              i   i   v  vi   i
C AluSx#SINE/Al        311 TTTTTTTTTTTTTTTTTTTT 292

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 12.76
Transitions / transversions = 2.00 (4/2)
Gap_init rate = 0.00 (0 / 19), avg. gap size = 0.0 (0 / 0)


77 0.00 1.32 1.32 Human_rDNA_Consensus_(Short)_IGS 23070 23145 (6232) (TCT)n#Simple_repeat 1 76 (0) c_b1s251i22 76

  Human_rDNA_Co      23070 TCTT-TTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTNTCTT 23118
                               -                                        -    
  (TCT)n#Simple          1 TCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCTTCT-TCTT 49

  Human_rDNA_Co      23119 CTTCTTCTTCTTCTTCTTCTTCTTCTT 23145
                                                      
  (TCT)n#Simple         50 CTTCTTCTTCTTCTTCTTCTTCTTCTT 76

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.03 (2 / 75), avg. gap size = 1.00 (2 / 2)


1434 14.40 0.79 1.19 Human_rDNA_Consensus_(Short)_IGS 23146 23377 (5975) C AluSx#SINE/Alu (21) 291 61 c_b1s352i9 75

  Human_rDNA_Co      23146 TTTTTTTTGAGACAGAGTTTCACTCTTGTTGCCCAGGCTAGGGGGCAATG 23195
                                        i    i  i    -  i         i i v   i  
C AluSx#SINE/Al        291 TTTTTTTTGAGACGGAGTCTCGCTCT-GTCGCCCAGGCTGGAGTGCAGTG 243

  Human_rDNA_Co      23196 GTGCGATCTCGGCTCACCCRCACCCTCCGCCTCCCGGGTTCAAGCGATTC 23245
                            i               i-?  v                           
C AluSx#SINE/Al        242 GCGCGATCTCGGCTCACT-GCAACCTCCGCCTCCCGGGTTCAAGCGATTC 194

  Human_rDNA_Co      23246 TCCTGCCTCAGCCTCCTGATTAGCTGGGATTACAGGCATGGGCCACCGGG 23295
                                           i  v                 ii v      iv 
C AluSx#SINE/Al        193 TCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCGCGCCACCACG 144

  Human_rDNA_Co      23296 CCTGGCTGATGTTTGTACTTTTAGTAGAGGCGGTGTTTT-CCATGTTGGT 23344
                             i    i  v      i           i   v    i-         i
C AluSx#SINE/Al        143 CCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTGGC 94

  Human_rDNA_Co      23345 TCAGGCTGGTCTC-CACTCCCAACCTCAGGTGGT 23377
                           -            -v     ii          i 
C AluSx#SINE/Al         93 -CAGGCTGGTCTCGAACTCCTGACCTCAGGTGAT 61

Matrix = 14p53g.matrix
Kimura (with divCpGMod) = 12.76
Transitions / transversions = 2.75 (22/8)
Gap_init rate = 0.02 (5 / 231), avg. gap size = 1.00 (5 / 5)


17 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 23412 23430 (5922) (CT)n#Simple_repeat 1 19 (0) m_b1s252i30 77

  Human_rDNA_Co      23412 CTCTCTCTCTCTCTCTCTC 23430
                                              
  (CT)n#Simple_          1 CTCTCTCTCTCTCTCTCTC 19

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 18), avg. gap size = 0.0 (0 / 0)


14 17.24 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 23455 23488 (5864) (TTGC)n#Simple_repeat 1 34 (0) m_b1s252i31 78

  Human_rDNA_Co      23455 TTGCTNGATTTCTTTCATGCTTGCTTTCTTGCTT 23488
                                ? v  v   v v         v       
  (TTGC)n#Simpl          1 TTGCTTGCTTGCTTGCTTGCTTGCTTGCTTGCTT 34

Matrix = Unknown
Transitions / transversions = 0.00 (0/5)
Gap_init rate = 0.00 (0 / 33), avg. gap size = 0.0 (0 / 0)

24 16.12 0.99 6.25 Human_rDNA_Consensus_(Short)_IGS 23463 23563 (5789) (TTTC)n#Simple_repeat 1 96 (0) m_b1s252i32 78

  Human_rDNA_Co      23463 TTTCTTTCATGCTTGCTTTCTTGCTTYCNGCTTTTNTNTTCTTTCTTTCT 23512
                                   v v   v       v   ? ?vii   ? -            
  (TTTC)n#Simpl          1 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCT-TTCTTTCTTTCT 49

  Human_rDNA_Co      23513 TTCTTT-TNNNTNTTCNTTTGCTTNCNTGTGCTTTAATGCTTTCTTGCTT 23561
                                 - ??? -   -   -   ? - - v    vv v       v   
  (TTTC)n#Simpl         50 TTCTTTCTTTCT-TTC-TTT-CTTTC-T-TTCTTTCTTTCTTTCTTTCTT 94

  Human_rDNA_Co      23562 TC 23563
                             
  (TTTC)n#Simpl         95 TC 96

Matrix = Unknown
Transitions / transversions = 0.20 (2/10)
Gap_init rate = 0.07 (7 / 100), avg. gap size = 1.00 (7 / 7)


744 15.28 14.02 0.98 Human_rDNA_Consensus_(Short)_IGS 23642 23912 (5440) C AluSx#SINE/Alu (6) 306 1 m_b1s357i5 79

  Human_rDNA_Co      23642 TNTTNTTTTNNTNTTNCTNTNTTTN---CTNNNTNNNTTNNTNTTTTTTN 23688
                            ?  ?    ?? ?  ?i ? ?   ?--- v??? ???vi?? ? iviii?
C AluSx#SINE/Al        306 TTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCA 257

  Human_rDNA_Co      23689 NGNTAGAGTGCAATG---TGATCTTGNYTC---------CNNGCCTCC-G 23725
                           ? ? i       i  ---i     i ??  ---------i??      - 
C AluSx#SINE/Al        256 GGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCCGCCTCCCG 207

  Human_rDNA_Co      23726 GGTTCG---GCTCYTCCTGCTTCAGNCTCCCGAG------GGATTACAGG 23766
                                i--- v i?      i    ?        ------          
C AluSx#SINE/Al        206 GGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGG 157

  Human_rDNA_Co      23767 -----GNCCCCACGCGGCTTGGCTGATGTTTGTGTTTT-AGTAGSCNSCC 23810
                           ----- ? v      ---ii    i  v     i    -     ?v??vv
C AluSx#SINE/Al        156 CGCGCGCCACCACGC---CCGGCTAATTTTTGTATTTTTAGTAGAGACGG 110

  Human_rDNA_Co      23811 GGTCTCTCCATGTTGCTCAGGCTGGTCTCCAACTCC-GACCTCCTGTGAT 23859
                              i  v        vi            v      -      vv     
C AluSx#SINE/Al        109 GGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGAT 60

  Human_rDNA_Co      23860 -CSCCCACCTCGGNCTCTC-GAGTGCTGGGANGG-GGGCGTGAGCCACCG 23906
                           - ?   i      ?   i -i          ?vi-i              
C AluSx#SINE/Al         59 CCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCG 10

  Human_rDNA_Co      23907 ---CCGGCC 23912
                           ---      
C AluSx#SINE/Al          9 CGCCCGGCC 1

Matrix = 18p53g.matrix
Kimura (with divCpGMod) = 17.11
Transitions / transversions = 1.67 (25/15)
Gap_init rate = 0.06 (16 / 270), avg. gap size = 2.56 (41 / 16)


37 15.62 1.90 3.88 Human_rDNA_Consensus_(Short)_IGS 24211 24315 (5037) (TCTT)n#Simple_repeat 1 103 (0) m_b1s252i33 80

  Human_rDNA_Co      24211 TCTGTTNTTTCTTCCTCTCCTTCGTGTTTTTC-TTCCTTCCTTNTTTNTT 24259
                              -  ?      i  i  i   - v i    -   i   i  ?   ?  
  (TCTT)n#Simpl          1 TCT-TTCTTTCTTTCTTTCTTTC-TTTCTTTCTTTCTTTCTTTCTTTCTT 48

  Human_rDNA_Co      24260 CCTTTCTTTCTTTCTCTCTTTCTGTCCTTTATTTCCTTTCATGCTTTC-T 24308
                           i              i       - i    v   -     v v     - 
  (TCTT)n#Simpl         49 TCTTTCTTTCTTTCTTTCTTTCT-TTCTTTCTTT-CTTTCTTTCTTTCTT 96

  Human_rDNA_Co      24309 TNTTTCT 24315
                            ?     
  (TCTT)n#Simpl         97 TCTTTCT 103

Matrix = Unknown
Transitions / transversions = 2.25 (9/4)
Gap_init rate = 0.06 (6 / 104), avg. gap size = 1.00 (6 / 6)


27 0.00 0.00 0.00 Human_rDNA_Consensus_(Short)_IGS 24543 24568 (4809) (CCTC)n#Simple_repeat 1 26 (0) c_b1s251i23 81

  Human_rDNA_Co      24543 CCTCCCTCCCTCCCTCCCTCCCTCCC 24568
                                                     
  (CCTC)n#Simpl          1 CCTCCCTCCCTCCCTCCCTCCCTCCC 26

Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 25), avg. gap size = 0.0 (0 / 0)


287 25.18 3.17 8.31 Human_rDNA_Consensus_(Short)_IGS 25474 26231 (3146) FordPrefect#DNA/hAT-Tip100 230 951 (732) m_b1s502i5 82

  Human_rDNA_Co      25474 CCCGCGTGTGTCCTGGGTTGACCAGAGGCCCCG-GGCGCTCCGTGTGTGG 25522
                                 i   ----    i       v      -  v      v vv v 
  FordPrefect#D        230 CCCGCGCGTG----GGGTCGACCAGATGCCCCGAGGAGCTCCGGGACTCG 275

  Human_rDNA_Co      25523 CTGCGATGGTGGCGTTTTTGGGGACAGGTGTCCGTGGCGCGCGTCGCCTG 25572
                            vv v    v v   iii-    v vv   v   v v v  -  i-- ii
  FordPrefect#D        276 CGCCTATGGGGTCGTCCC-GGGGCCCCGTGGCCGGGCCCCG-GTT--CCA 321

  Human_rDNA_Co      25573 GGCCGGCGGCGTGGTCGGTGACGCGACCTCCCG--GCCCCGGGGAGRATA 25620
                             vv      v   ivi i ivv  --      -- v  v v vi ?  v
  FordPrefect#D        322 GGAGGGCGGCCTGGCGAGCGGATCG--CTCCCGCTGGCCGGCGCGGTATT 369

  Human_rDNA_Co      25621 TCTTTCGCTCGRGKTCG-GC---ATTTGGGGCCGCCGGGTTGT--CTGAC 25664
                                   -- ? ?   -  ---   --        i iv  v--     
  FordPrefect#D        370 TCTTTCGC--GGGATCGCGCGAGATT--GGGCCGCCAGAATGGTGCTGAC 415

  Human_rDNA_Co      25665 ACGCTGTCYCTCTGGCGACCTGTCGCTGGAGANGTTGGGCCTCCGGATGC 25714
                                 -v?i vv  i   - v  i  v--- ?  i  i v- v   i v
  FordPrefect#D        416 ACGCTG-ATTTGGGGTGAC-TCTCACTC---ACGTCGGACA-CAGGACGA 459

  Human_rDNA_Co      25715 GCGCGGGGCTCTGGCCTANCGGTGACCCGGCTAGCCGGCCCGGCTCCTGC 25764
                            iv i         v   ?  ii ii  iv --    i   --- ivv  
  FordPrefect#D        460 GTTCAGGGCTCTGGGCTACCGACGGTCCACC--GCCGACCC---TTGGGC 504

  Human_rDNA_Co      25765 TTGAGCCGCCTGCCGGGGCCCGCGGGCCTGCTGTTCTCGCGCGTCCGAGS 25814
                                    v  ivv       i v i v  ---      v     -- ?
  FordPrefect#D        505 TTGAGCCGCATGTGTGGGCCCGTGCGTCGGC---TCTCGCCCGTCC--GT 549

  Human_rDNA_Co      25815 GTCCCGGCTCCCGGTGCCGGCCCGGGTCCGGGTCTCTGACCCACCCG-GG 25863
                             i   i - v        v -----     ---   ivvv      -  
  FordPrefect#D        550 GTTCCGAC-CGCGGTGCCGCC-----TCCGG---TCTACAGCACCCGAGG 590

  Human_rDNA_Co      25864 GCGGCGGGA--GGCGGCGAGGGCCACNTGCCCCGTGCGCY-CTCTCCGCG 25910
                                   i--      ii v i vi? i   i      ?- i v    v
  FordPrefect#D        591 GCGGCGGGGGTGGCGGCAGGCGTCCTTTACCCTGTGCGCCTCCCACCGCT 640

  Human_rDNA_Co      25911 GGCGCCCGGGGCGGCCGNGACANCCCCCCCGCTGGCTCCGTGCCGTGCGT 25960
                              i   i      i i?vv  ?    i    v       i   --i   
  FordPrefect#D        641 GGCACCCAGGGCGGTCACCCCACCCCCTCCGCAGGCTCCGCGCC--ACGT 688

  Human_rDNA_Co      25961 GTCAGGCGTTCTCGTCTCCGCGGGGTGTCCGCCGCCCCTTCCCGGGGNGG 26010
                                  iv  ----     -      v   -    iv ii  vvv ?  
  FordPrefect#D        689 GTCAGGCAGTC----CTCCG-GGGGTGGCCG-CGCCTATCTCCTCCGAGG 732

  Human_rDNA_Co      26011 GGGTTGGCCGAGCCGATCGGCTCGCTG-GCCGGCCGGCCGGCCTCCCGCT 26059
                            vv  ---    v vi i vii   vi-   ii v   ---   i   v 
  FordPrefect#D        733 GCTTT---CGAGACCGTTGCTCCGCAACGCCAACGGGC---CCTTCCGAT 776

  Human_rDNA_Co      26060 CCCGGGGGCTCTTCGT------GATCGATGTGGTGACGTCGTGCTCTNCC 26103
                           --  iv v iii  v ------                         ?  
  FordPrefect#D        777 --CGATGTCCTCTCTTGCCTCCGATCGATGTGGTGACGTCGTGCTCTCCC 824

  Human_rDNA_Co      26104 GGGCCGGGTCCGAGCCGCGACGGGCGAGGG-CGGACGTTCGTG--GCGRA 26150
                              i   viiii     i v   i      -     i   v v--   ? 
  FordPrefect#D        825 GGGTCGGTCTTAAGCCGTGCCGGACGAGGGACGGACATTCCTTGCGCGAA 874

  Human_rDNA_Co      26151 CCGGACCGTCCTTCTCGCTCCGCCCG-GGGCCCCTCGTCTCCTCTCCCCG 26199
                           iv      ii               i-          i  vii   ----
  FordPrefect#D        875 TGGGACCGCTCTTCTCGCTCCGCCCACGGGCCCCTCGCCTATCCTC---- 920

  Human_rDNA_Co      26200 CCCGCCGGNNNNNCGTGGGGAAGGCGTGGGGT 26231
                                i v?????i   v       i-     
  FordPrefect#D        921 CCCGCTGTGGCGGTGTGTGGAAGGCA-GGGGT 951

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 28.89
Transitions / transversions = 0.98 (85/87)
Gap_init rate = 0.10 (73 / 757), avg. gap size = 1.15 (84 / 73)


29 26.13 1.88 5.16 Human_rDNA_Consensus_(Short)_IGS 28943 29102 (275) (CGCC)n#Simple_repeat 1 155 (0) m_b1s252i34 83

  Human_rDNA_Co      28943 CGCCGCGCCCCGCCCCGCCCCACCGGTCCCGGCCGCCGCCCCCGCCCGCT 28992
                               -  -    -    -   i  v -    v     - v         -
  (CGCC)n#Simpl          1 CGCC-CG-CCCG-CCCG-CCCGCCCG-CCCGCCCGCC-CGCCCGCCCGC- 43

  Human_rDNA_Co      28993 CNCNCCCTCCCGTCCGCCCGTCCG-CGGCCCGTCCGTCCGTCCG-TCGTC 29040
                            - ?   v    i       i   - v     i   i   i   -i  i 
  (CGCC)n#Simpl         44 C-CGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCC 92

  Human_rDNA_Co      29041 SNCCC-CCNGCTTGCGGGGGCCCNGGCCCGTCCTCGCGGGCCCCCGGCCG 29089
                           ??   -  ?  ii  vv vv v ?v     i  v v  vv v    v   
  (CGCC)n#Simpl         93 CGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCGCCCG 142

  Human_rDNA_Co      29090 GCCGTCCGGCCGC 29102
                           v   i   v    
  (CGCC)n#Simpl        143 CCCGCCCGCCCGC 155

Matrix = Unknown
Transitions / transversions = 0.63 (12/19)
Gap_init rate = 0.07 (11 / 159), avg. gap size = 1.00 (11 / 11)


1082 9.24 5.91 4.15 Human_rDNA_Consensus_(Short)_IGS 29137 29373 (4) SSU-rRNA_Hsa#rRNA 7 247 (1622) m_b1s551i3 84

  Human_rDNA_Co      29137 GTTGATCCCGCCAGTAGCATATGCTTCATCTCAGCGATT--GTCATGCAT 29184
                                   i       v         -i     iv    -- i       
  SSU-rRNA_Hsa#          7 GTTGATCCTGCCAGTACCATATGCTT-GTCTCAAAGATTAAGCCATGCAT 55

  Human_rDNA_Co      29185 GTTCAAGTACGCAACGGCCGGTACAGTGAAACCGCGAATGGCTCATTAAA 29234
                             ii         ?-                 i                 
  SSU-rRNA_Hsa#         56 GTCTAAGTACGCAN-GGCCGGTACAGTGAAACTGCGAATGGCTCATTAAA 104

  Human_rDNA_Co      29235 TCCAAG---CGGT---CTTGGTCGCCTTTCGC-CCTCTCCTAC-TGGATA 29276
                             --  ---i   ---i        ---    -          -    ? 
  SSU-rRNA_Hsa#        105 TC--AGTTATGGTTCCTTTGGTCGC---TCGCTCCTCTCCTACTTGGANA 149

  Human_rDNA_Co      29277 ACTGTGGTAATTCTAGAGCCAATACACGCCGAGCTGGCGCCGA-CCCCTT 29325
                                              i      i     - v     i  -      
  SSU-rRNA_Hsa#        150 ACTGTGGTAATTCTAGAGCTAATACATGCCGA-CGGGCGCTGACCCCCTT 198

  Human_rDNA_Co      29326 CGC-GGGGGGATGCAT--TTCTATCAGGACTAAAACCAACCCAAGTCAGC 29372
                              -          i --v i     -  ii           -i      
  SSU-rRNA_Hsa#        199 CGCGGGGGGGATGCGTGCATTTATCA-GATCAAAACCAACCC-GGTCAGC 246

  Human_rDNA_Co      29373 C 29373
                            
  SSU-rRNA_Hsa#        247 C 247

Matrix = 20p53g.matrix
Kimura (with divCpGMod) = 9.20
Transitions / transversions = 4.25 (17/4)
Gap_init rate = 0.08 (18 / 236), avg. gap size = 1.33 (24 / 18)