genome.fa.s16.2.7.7.80.10.50.1000.16.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: D03
Parameters: 2 7 7 80 10 50 1000
Length:  53248092

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   

This is table  16  of  175  ( 20966 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)
4551981--4552017	17	2.1	19	90	10	60	29	0	0	70	0.88
4554199--4554223	4	6.2	4	100	0	50	76	0	24	0	0.80
4560873--4560916	22	2.0	21	87	12	63	13	47	0	38	1.43
4565901--4566044	60	2.4	60	78	9	150	43	19	10	26	1.83
4565901--4566031	31	4.4	29	75	12	97	44	19	10	25	1.83
4565922--4566064	31	4.7	30	76	8	110	43	16	12	27	1.84
4566480--4566573	39	2.4	39	79	15	104	45	1	1	52	1.15
4566466--4566573	40	2.7	38	78	13	103	45	0	0	52	1.13
4568266--4568316	18	2.7	20	79	14	63	39	0	0	60	0.97
4571138--4571274	66	2.0	69	87	4	199	36	8	10	44	1.69
4572739--4572795	28	2.1	28	83	9	73	54	3	8	33	1.48
4573156--4573194	21	1.9	20	84	5	51	23	17	10	48	1.78
4575757--4575824	31	2.3	29	78	11	77	44	11	5	38	1.65
4578350--4578382	11	2.9	12	86	13	52	33	0	0	66	0.92
4578383--4578423	18	2.3	19	80	16	52	65	12	0	21	1.25
4578504--4578566	30	2.1	30	87	0	90	57	11	4	26	1.53
4585425--4585465	6	6.8	6	94	0	64	56	0	26	17	1.41
4589300--4589336	18	2.0	19	94	5	67	37	5	21	35	1.77
4589908--4589952	23	2.0	23	86	0	63	42	20	17	20	1.90
4589957--4590141	69	2.7	69	84	5	232	23	11	17	47	1.80
4591847--4591871	6	4.2	6	100	0	50	48	16	0	36	1.46
4592350--4592549	108	1.9	108	90	4	323	32	20	19	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4595383--4595433	9	5.9	9	84	9	52	84	9	0	5	0.78
4595382--4595448	25	2.7	24	84	9	80	85	7	1	5	0.81
4595381--4595449	23	3.0	24	78	6	63	84	8	1	5	0.84
4595380--4595441	6	10.8	6	78	13	51	83	9	0	6	0.79
4595884--4595928	19	2.2	21	84	7	58	82	4	13	0	0.82
4595882--4595942	13	4.5	13	77	6	59	78	3	18	0	0.88
4595882--4595944	32	2.1	29	85	8	81	77	3	19	0	0.90
4596846--4597022	87	2.0	87	87	0	255	29	23	22	23	1.99
4596976--4597118	44	3.2	45	76	9	148	30	23	22	23	1.99
4597114--4598616	95	16.1	95	78	10	1273	29	17	22	30	1.97
4597198--4598138	326	2.9	323	78	7	1055	29	17	22	30	1.96
4597299--4597949	231	2.8	231	91	0	1063	28	17	22	30	1.97
4597690--4597785	46	2.1	46	82	3	113	23	16	27	32	1.96
4598158--4598504	43	7.5	43	63	18	126	29	18	22	29	1.98
4598612--4599134	44	12.4	43	80	11	584	33	23	21	22	1.98
4598612--4599134	256	2.1	252	91	2	834	33	23	21	22	1.98
4598612--4599134	84	6.2	84	90	2	825	33	23	21	22	1.98
4601515--4601821	108	2.9	108	89	2	467	31	19	18	30	1.96
4603675--4603728	27	2.0	27	85	3	74	61	0	3	35	1.14
4603689--4603727	5	7.6	5	91	5	51	66	0	2	30	1.05
4603884--4603916	9	3.7	9	88	11	50	0	15	0	84	0.61
4604210--4604243	10	3.4	10	83	0	50	0	26	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4604214--4604265	14	3.7	15	82	10	65	0	30	0	69	0.89
4604182--4604270	46	1.9	46	84	4	117	0	24	1	74	0.89
4604210--4604264	18	3.2	17	77	10	58	0	29	0	70	0.87
4604209--4604270	11	5.6	10	72	20	52	0	30	0	69	0.89
4604350--4604388	16	2.4	16	82	4	51	0	23	0	76	0.78
4604355--4604395	19	2.0	21	86	13	59	0	19	0	80	0.71
4604751--4604888	30	4.6	30	78	5	118	35	4	23	36	1.75
4604776--4604887	59	1.9	59	84	0	152	35	3	22	38	1.72
4609585--4609609	13	1.9	13	100	0	50	32	8	16	44	1.76
4614562--4614602	21	2.0	21	90	0	64	29	21	29	19	1.98
4620551--4620599	25	1.9	26	87	4	73	4	16	6	73	1.19
4621726--4621763	20	1.9	20	88	0	58	34	15	15	34	1.90
4624106--4624155	17	2.7	20	78	18	70	10	0	44	46	1.37
4628745--4628794	17	2.7	20	78	18	70	10	0	44	46	1.37
4630771--4630819	10	4.7	10	78	9	53	6	10	2	81	0.94
4633035--4633064	5	6.0	5	100	0	60	0	20	60	20	1.37
4635429--4635459	16	1.9	16	93	0	53	61	0	3	35	1.12
4637011--4637067	25	2.2	27	93	6	100	31	5	3	59	1.36
4637017--4637073	25	2.4	23	85	5	78	35	3	5	56	1.39
4642281--4642342	32	1.9	32	87	12	92	43	1	1	53	1.20
4642281--4642329	14	3.2	14	80	13	53	46	2	0	51	1.12
4647820--4647886	29	2.3	29	92	5	109	49	14	2	32	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4653792--4653822	3	10.3	3	100	0	62	67	32	0	0	0.91
4655739--4655840	52	2.0	52	84	0	132	59	0	6	33	1.24
4658241--4658286	22	2.0	23	83	4	58	39	6	2	52	1.40
4658252--4658296	22	2.0	22	83	8	56	35	11	0	53	1.37
4660413--4660455	21	2.1	21	86	4	61	46	2	20	30	1.63
4661188--4661236	22	2.2	22	78	7	55	59	8	10	22	1.56
4663687--4663889	107	1.9	106	88	3	309	36	21	15	26	1.93
4664618--4664713	48	2.0	48	82	11	119	53	3	9	34	1.49
4664646--4664695	26	2.0	25	84	4	64	56	2	10	32	1.44
4664657--4664713	22	2.6	22	77	0	69	52	1	7	38	1.39
4666379--4666536	44	3.6	43	74	10	124	23	23	21	31	1.98
4666378--4666561	87	2.1	88	79	3	210	22	25	21	31	1.98
4666339--4666608	131	2.1	131	82	2	328	24	24	20	30	1.99
4666586--4666703	56	2.1	55	93	3	200	17	25	23	33	1.97
4666641--4667050	89	4.7	88	86	4	494	23	24	22	29	1.99
4668286--4668310	6	4.2	6	100	0	50	16	16	0	68	1.22
4668732--4668764	12	2.8	12	95	4	59	12	0	6	81	0.85
4672753--4672955	107	1.9	106	88	3	309	36	20	15	27	1.93
4673491--4673522	12	2.7	12	95	0	55	71	0	9	18	1.12
4673715--4673764	26	2.0	25	84	4	64	56	2	10	32	1.44
4673687--4673781	48	2.0	48	82	11	117	52	3	9	34	1.50
4673726--4673778	22	2.4	22	74	0	61	52	1	7	37	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4675400--4675426	10	2.7	10	100	0	54	33	11	37	18	1.86
4675626--4675696	28	2.5	29	75	9	74	57	8	0	33	1.29
4676543--4676623	29	2.7	31	81	9	96	41	1	3	53	1.27
4679062--4679130	36	1.9	36	96	0	129	52	8	18	20	1.72
4682050--4682091	21	2.0	21	85	0	57	42	7	9	40	1.65
4683368--4683420	19	3.0	17	78	10	61	35	9	18	35	1.84
4683392--4683436	23	2.0	22	86	4	63	37	6	17	37	1.76
4683402--4683446	23	2.0	23	82	4	56	33	6	15	44	1.73
4683861--4683900	3	13.3	3	89	10	64	35	0	0	65	0.93
4683861--4683901	21	2.0	20	95	4	73	36	0	0	63	0.95
4683928--4683990	31	2.1	31	85	5	85	44	4	1	49	1.33
4690333--4690647	44	7.2	44	63	8	156	25	27	26	20	1.99
4690275--4690685	88	4.7	88	91	0	651	28	28	24	18	1.98
4690685--4691008	44	7.5	44	83	6	394	28	18	25	28	1.98
4690811--4690933	38	3.1	38	78	13	138	30	17	24	26	1.97
4690685--4691006	126	2.5	129	83	6	418	28	18	24	28	1.98
4690687--4691008	170	1.9	169	88	1	484	28	18	25	28	1.98
4691211--4691342	50	2.6	50	92	0	192	28	21	28	21	1.99
4691231--4691342	50	2.2	50	98	0	215	27	21	27	23	1.99
4691906--4692020	19	5.8	19	89	4	149	35	7	17	39	1.79
4691907--4691990	21	4.1	21	93	3	145	38	8	15	38	1.78
4691906--4692027	40	3.2	38	83	11	149	36	7	18	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4691907--4692020	61	1.9	60	87	3	167	35	7	16	39	1.78
4692009--4692057	23	2.2	23	85	7	66	34	4	16	44	1.66
4692478--4692517	3	13.3	3	89	10	64	35	0	0	65	0.93
4692478--4692518	21	2.0	20	95	4	73	36	0	0	63	0.95
4692545--4692607	31	2.1	31	85	5	85	44	4	1	49	1.33
4695449--4695487	21	1.9	20	89	5	60	20	0	35	43	1.52
4698087--4698123	13	2.9	13	92	4	58	54	2	8	35	1.44
4698539--4698580	18	2.3	18	80	8	50	42	2	2	52	1.27
4698825--4699210	36	10.7	35	76	9	201	47	11	3	37	1.57
4698823--4699181	63	6.0	63	80	14	445	49	10	3	36	1.55

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