genome.fa.s20.2.7.7.80.10.50.1000.164.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: D07
Parameters: 2 7 7 80 10 50 1000
Length:  58101237

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199   

This is table  164  of  199  ( 23844 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48132426--48132452	6	4.5	6	100	0	54	33	0	14	51	1.43
48136520--48136586	30	2.2	30	91	0	107	38	19	17	23	1.93
48136678--48136762	29	2.9	28	82	10	91	35	29	12	22	1.91
48136647--48136809	30	5.4	30	75	7	116	39	26	15	19	1.91
48137147--48137192	16	2.9	16	87	6	58	34	19	17	28	1.94
48141388--48141431	18	2.4	19	88	7	65	75	2	0	22	0.92
48141195--48141342	9	15.8	9	68	12	66	63	3	3	29	1.27
48141872--48142128	9	27.8	9	66	19	84	31	2	3	62	1.24
48141955--48142047	26	3.5	25	75	20	75	33	1	4	61	1.23
48141961--48142116	53	2.9	54	79	14	162	32	0	3	62	1.18
48142024--48142063	20	2.1	19	86	13	55	30	0	7	62	1.23
48141978--48142074	20	5.2	20	72	21	54	32	1	5	60	1.25
48142071--48142126	20	3.1	18	77	10	51	26	0	0	73	0.84
48153147--48153371	50	4.4	50	78	3	164	23	26	20	29	1.99
48155395--48155431	18	2.0	19	89	5	58	35	10	13	40	1.80
48155765--48155827	26	2.4	26	84	5	83	36	15	7	39	1.77
48158575--48158982	94	4.3	95	82	5	438	33	16	25	24	1.96
48162691--48162872	28	6.5	28	92	1	276	33	26	12	28	1.92
48168018--48168048	14	2.3	13	94	5	53	38	9	0	51	1.35
48168984--48169025	13	3.2	13	87	9	59	30	0	14	54	1.40
48179822--48179989	85	2.0	86	92	2	284	30	10	14	44	1.79
48179918--48180144	80	2.9	78	77	6	242	29	12	12	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48197938--48197991	21	2.6	21	80	11	58	40	9	27	22	1.84
48203096--48203147	12	4.7	12	77	18	58	61	34	1	1	1.18
48203101--48203145	20	2.2	21	92	4	74	60	37	2	0	1.09
48208722--48208792	26	2.5	29	80	11	76	36	7	7	49	1.57
48208722--48208794	28	2.6	29	76	10	78	36	6	6	49	1.56
48211685--48211754	7	9.6	7	73	14	52	1	21	1	75	0.96
48211685--48211756	15	4.5	15	74	10	63	1	20	1	76	0.94
48212103--48212137	18	1.9	18	88	0	52	14	0	25	60	1.35
48212431--48212514	29	2.9	29	94	1	141	19	22	38	20	1.94
48216295--48216540	35	7.0	35	76	8	205	21	23	23	31	1.98
48216294--48216608	69	4.5	70	78	7	309	21	23	22	32	1.98
48225347--48225390	22	2.0	22	100	0	88	22	22	18	36	1.95
48236594--48236698	31	3.4	30	77	12	115	40	2	3	52	1.34
48236623--48236701	11	7.6	11	66	18	53	43	1	2	53	1.22
48236572--48236704	61	2.2	61	94	0	230	42	3	4	49	1.38
48237359--48237396	3	12.7	3	94	0	67	65	0	0	34	0.93
48243918--48244021	44	2.5	40	76	22	113	36	30	4	27	1.78
48243929--48244021	44	2.1	46	91	4	154	37	31	4	26	1.76
48243937--48244034	46	2.2	44	85	7	126	40	31	6	21	1.78
48246871--48246907	3	12.3	3	100	0	74	35	32	0	32	1.58
48247633--48247711	15	5.4	14	79	13	70	69	1	26	2	1.09
48248011--48248051	21	2.0	21	85	0	55	19	2	4	73	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48248019--48248074	19	2.9	19	76	12	69	19	1	3	75	1.05
48258582--48258622	21	2.0	21	100	0	82	39	14	4	41	1.67
48259519--48259578	3	21.0	3	76	10	63	66	0	31	1	1.01
48259530--48259581	11	5.1	10	78	17	54	67	0	30	1	1.02
48260596--48260676	40	2.0	41	85	7	112	30	23	19	25	1.98
48261126--48261170	18	2.5	18	88	0	63	15	37	31	15	1.89
48264320--48264352	17	1.9	17	100	0	66	6	18	45	30	1.73
48268633--48268678	16	3.0	16	84	6	60	47	0	4	47	1.21
48270012--48270036	13	1.9	13	100	0	50	40	0	0	60	0.97
48276487--48276511	13	1.9	13	100	0	50	52	0	0	48	1.00
48280936--48280986	26	2.0	26	92	0	84	41	5	1	50	1.37
48281920--48281963	21	2.0	22	86	4	63	15	18	9	56	1.65
48288792--48288829	14	2.8	13	92	7	67	47	5	10	36	1.61
48289066--48289254	69	2.7	69	81	2	227	20	22	17	39	1.92
48289067--48289253	103	1.8	103	92	0	320	20	22	17	39	1.92
48291951--48291993	21	2.0	23	81	9	54	32	11	11	44	1.77
48295855--48295898	13	3.1	14	80	12	54	34	40	11	13	1.81
48299222--48299356	21	6.4	21	76	6	112	19	20	14	45	1.85
48299225--48299375	42	3.6	42	84	3	173	19	20	15	44	1.87
48299232--48299354	63	2.0	63	81	3	149	19	21	14	44	1.86
48302811--48302871	31	2.0	31	90	0	95	26	4	8	60	1.45
48303648--48303672	3	8.3	3	100	0	50	36	32	32	0	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48313063--48313125	16	3.7	16	80	15	81	63	12	12	11	1.52
48313058--48313143	36	2.4	36	100	0	172	59	13	12	13	1.62
48330713--48330737	12	2.1	12	100	0	50	24	36	24	16	1.94
48330896--48330983	9	9.8	9	97	0	149	37	29	10	22	1.87
48339865--48339908	22	2.0	22	86	0	61	29	11	29	29	1.92
48341516--48341599	25	3.4	25	91	1	125	40	2	1	55	1.20
48342386--48342434	14	3.4	15	76	23	52	71	18	4	6	1.23
48346038--48346070	17	1.9	17	100	0	66	24	18	27	30	1.98
48351870--48351901	13	2.5	13	100	0	64	0	34	9	56	1.32
48353384--48353438	27	2.0	27	86	6	76	45	3	1	49	1.30
48353427--48353472	21	2.2	20	84	3	56	36	4	4	54	1.40
48356305--48356359	21	2.6	21	94	0	92	29	25	29	16	1.97
48364975--48365020	23	2.0	23	100	0	92	17	13	17	52	1.75
48365750--48365780	15	2.1	15	93	0	53	35	3	19	41	1.67
48365735--48365783	18	2.7	18	77	0	62	40	2	22	34	1.66
48365825--48365859	18	1.9	18	94	0	61	62	5	22	8	1.45
48366677--48366708	16	2.0	16	100	0	64	43	18	18	18	1.88
48366728--48366919	97	2.0	97	100	0	384	26	15	22	35	1.94
48366993--48367034	15	2.7	16	78	14	52	45	2	0	52	1.13
48369007--48369040	18	2.0	18	88	11	54	44	0	2	52	1.16
48369117--48369295	68	2.9	59	82	13	241	45	8	4	41	1.54
48369208--48369233	9	2.9	9	100	0	52	57	7	0	34	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48369147--48369317	68	2.5	68	95	1	301	47	7	4	40	1.51
48369306--48369347	16	2.6	16	92	0	66	42	7	2	47	1.43
48369147--48369339	68	3.0	66	90	6	274	48	7	3	40	1.50
48369329--48369389	30	2.0	31	83	6	79	50	1	1	45	1.21
48369557--48369596	21	1.9	21	85	10	55	22	2	7	67	1.28
48369668--48369706	11	3.4	11	86	10	51	51	0	2	46	1.14
48374732--48374789	30	1.9	30	92	0	98	12	27	39	20	1.88
48375111--48375447	72	4.7	71	86	2	399	54	15	5	25	1.63
48376720--48376758	20	2.0	20	90	10	62	15	23	5	56	1.59
48381659--48381747	40	2.2	40	90	2	144	39	16	19	24	1.92
48382443--48382507	21	3.0	22	84	6	78	16	20	23	40	1.92
48384989--48385111	62	2.0	62	96	0	228	40	10	15	33	1.82
48386146--48386232	37	2.4	37	94	0	147	25	1	29	43	1.62
48387740--48387774	12	2.9	12	82	0	52	68	2	2	25	1.17
48388905--48388951	25	1.9	24	86	4	67	19	0	10	70	1.16
48389582--48389630	14	3.5	14	79	20	66	30	0	18	51	1.47
48389570--48389629	28	2.1	28	100	0	120	30	0	18	51	1.46
48392087--48392167	41	2.0	41	100	0	162	14	9	27	48	1.76
48394625--48394780	42	3.7	42	77	16	169	30	26	18	24	1.98
48401958--48402113	42	3.7	42	77	16	169	30	26	18	24	1.98
48403907--48403931	5	5.0	5	100	0	50	20	0	20	60	1.37
48417855--48418008	56	2.7	55	87	5	209	30	7	16	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48422522--48422557	5	7.2	5	100	0	72	61	0	0	38	0.96
48424315--48424435	52	2.3	53	79	13	135	71	3	6	19	1.23
48424336--48424405	30	2.3	31	80	14	83	70	2	8	18	1.26
48442717--48442815	41	2.4	40	83	9	119	27	25	19	28	1.98
48448865--48448958	29	3.3	29	73	8	84	23	13	25	37	1.92
48454693--48454739	21	2.2	21	80	0	58	12	23	12	51	1.74
48454757--48454788	16	1.9	17	93	6	57	28	9	0	62	1.26
48455271--48455315	20	2.2	20	88	0	63	20	20	11	48	1.79
48457173--48457357	101	1.8	101	88	3	282	23	16	27	32	1.96
48457169--48457359	51	3.8	50	82	4	231	23	16	28	32	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   199