genome.fa.s2.2.7.7.80.10.50.1000.13.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: Chr10
Parameters: 2 7 7 80 10 50 1000
Length:  48586650

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   

This is table  13  of  145  ( 17348 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)
4370897--4370986	9	10.2	9	66	13	53	45	0	2	52	1.13
4370929--4370992	19	3.3	20	82	10	80	40	0	4	54	1.21
4375107--4375151	21	2.1	21	87	0	63	57	6	6	28	1.50
4383215--4383245	2	15.5	2	100	0	62	48	0	0	51	1.00
4385108--4385154	20	2.4	19	82	6	67	34	0	4	61	1.15
4392172--4392219	25	1.9	25	83	8	62	25	6	2	66	1.26
4392153--4392268	17	6.3	18	67	16	58	31	5	0	62	1.23
4395070--4395144	31	2.4	32	86	6	100	46	12	13	28	1.78
4400795--4400865	21	3.3	21	80	5	63	66	1	7	25	1.25
4401519--4401808	109	2.6	110	90	4	442	32	21	15	30	1.95
4401773--4401876	54	1.9	54	94	0	181	29	23	10	36	1.88
4401917--4401950	15	2.3	14	90	10	50	67	5	5	20	1.33
4403642--4403688	23	2.1	23	84	7	62	21	2	4	72	1.12
4409149--4409258	29	3.7	30	75	3	98	30	22	4	41	1.74
4409132--4409259	30	4.3	30	72	8	91	32	20	4	42	1.72
4409814--4409847	13	2.6	13	90	9	52	76	0	23	0	0.79
4409815--4409860	22	2.1	22	87	0	65	71	0	28	0	0.86
4409945--4410008	23	3.0	21	79	20	78	78	0	21	0	0.76
4409937--4409998	12	5.0	12	76	7	61	72	0	27	0	0.85
4409941--4410005	32	2.1	31	86	13	89	76	0	23	0	0.78
4409954--4410008	25	2.4	23	82	14	69	78	0	21	0	0.76
4409941--4410008	13	5.7	12	80	10	68	77	0	22	0	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410170--4410217	19	2.5	19	79	0	51	27	43	20	8	1.80
4410773--4410850	17	4.4	17	73	12	75	38	11	11	38	1.78
4410790--4410968	19	9.1	20	65	22	69	35	11	10	41	1.76
4410780--4410849	17	3.9	17	75	14	77	31	12	12	42	1.81
4417830--4417901	7	9.9	7	78	14	58	83	11	4	1	0.85
4418782--4419288	80	6.2	80	97	1	906	31	19	19	28	1.97
4419607--4419640	10	3.8	9	92	7	52	82	5	0	11	0.83
4419606--4419639	9	3.6	10	88	11	54	85	5	0	8	0.75
4419636--4419762	30	4.3	30	72	9	109	33	21	4	40	1.74
4420325--4420358	13	2.6	13	90	9	52	76	0	23	0	0.79
4420326--4420371	22	2.1	22	87	0	65	71	0	28	0	0.86
4420456--4420519	23	3.0	21	79	20	78	78	0	21	0	0.76
4420452--4420516	32	2.1	31	86	13	89	76	0	23	0	0.78
4420465--4420520	25	2.4	23	81	16	71	78	0	21	0	0.75
4420458--4420520	13	5.1	13	79	11	62	79	0	20	0	0.73
4420452--4420520	6	11.2	6	76	15	61	78	0	21	0	0.76
4420461--4420520	11	5.4	11	73	11	50	80	0	20	0	0.72
4420680--4420727	19	2.5	19	82	0	60	29	43	18	8	1.79
4421293--4421338	17	2.6	17	83	12	58	30	15	8	45	1.76
4421523--4421612	44	2.0	46	89	6	139	32	12	13	42	1.81
4421587--4421656	17	3.9	17	75	14	77	31	12	12	42	1.81
4421587--4421775	20	9.8	18	69	23	84	33	12	11	42	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4421678--4421736	18	3.4	17	80	15	68	40	6	8	44	1.61
4421699--4421736	17	2.3	17	90	4	60	39	5	10	44	1.61
4421811--4421852	19	2.2	19	83	8	50	45	4	9	40	1.58
4424870--4424912	23	1.9	23	85	4	61	39	4	4	51	1.44
4425151--4425176	12	2.2	12	100	0	52	50	0	7	42	1.31
4425120--4425227	45	2.5	41	78	16	112	42	0	5	50	1.31
4426535--4426602	19	3.7	18	75	13	66	26	4	0	69	1.07
4426535--4426602	9	7.3	9	77	11	66	26	4	0	69	1.07
4450791--4450826	2	18.5	2	88	5	56	50	2	0	47	1.15
4455726--4455838	58	1.9	58	98	0	217	36	30	17	15	1.91
4456078--4456119	22	2.0	20	82	17	50	7	11	19	61	1.52
4456410--4456833	80	5.3	80	93	0	717	37	33	3	24	1.74
4456410--4456833	160	2.7	160	97	0	796	37	33	3	24	1.74
4456801--4456863	33	1.9	33	90	0	99	41	22	4	31	1.74
4456730--4456946	112	1.9	113	85	4	305	39	28	5	26	1.79
4456825--4457002	80	2.2	80	81	3	205	36	30	6	26	1.82
4456642--4457000	192	1.9	193	87	1	533	37	32	5	25	1.78
4460167--4460220	21	2.3	26	75	21	64	46	3	7	42	1.49
4471798--4472077	142	2.0	142	97	0	533	32	20	19	27	1.97
4478978--4479006	2	14.5	2	100	0	58	51	0	0	48	1.00
4480530--4480575	9	5.2	9	89	5	67	39	28	10	21	1.87
4480530--4480575	17	2.6	18	82	6	67	39	28	10	21	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4481380--4481452	30	2.4	30	77	8	78	54	13	1	30	1.47
4486795--4486819	3	8.3	3	100	0	50	68	0	0	32	0.90
4492658--4492699	18	2.3	19	83	8	59	50	28	2	19	1.60
4496690--4496721	2	16.0	2	100	0	64	50	0	0	50	1.00
4504096--4504136	21	2.0	21	90	0	64	17	17	51	14	1.77
4509207--4509247	21	2.0	21	90	0	64	17	17	51	14	1.77
4514379--4514414	18	2.0	18	94	0	63	30	27	11	30	1.91
4514381--4514420	18	2.2	18	86	0	53	27	32	5	35	1.79
4526348--4526397	6	8.3	6	84	0	55	10	68	4	18	1.34
4526348--4526394	24	2.0	24	100	0	94	10	68	4	17	1.35
4528792--4528863	27	2.6	27	88	2	99	47	18	15	19	1.83
4529774--4529846	36	2.0	36	89	0	110	28	8	6	56	1.55
4531764--4531820	11	5.1	11	77	12	53	64	3	0	31	1.10
4532268--4532314	23	2.0	23	91	0	76	31	6	19	42	1.76
4533271--4533297	14	1.9	14	100	0	54	44	0	7	48	1.31
4534708--4534771	25	2.6	25	71	0	65	25	28	17	29	1.97
4551231--4551270	3	13.3	3	100	0	80	67	0	0	32	0.91
4551808--4551868	27	2.2	28	88	2	88	34	32	9	22	1.87
4551863--4551900	20	1.9	20	84	10	51	42	28	10	18	1.83
4552682--4552715	6	5.8	6	96	3	61	17	0	0	82	0.67
4559079--4559119	3	13.7	3	100	0	82	68	0	0	31	0.90
4565909--4566036	64	2.0	64	96	0	238	33	4	12	49	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4581404--4581450	22	2.1	22	100	0	94	57	17	19	6	1.60
4585395--4585440	23	2.0	23	87	4	67	60	0	4	34	1.16
4586525--4587031	171	3.0	171	99	0	1005	33	11	20	34	1.89
4588733--4588776	18	2.7	15	89	10	61	70	9	0	20	1.14
4614074--4614183	42	2.6	43	77	12	120	32	21	20	25	1.97
4615892--4616092	107	1.8	108	89	4	314	33	21	15	28	1.95
4618613--4618638	3	8.7	3	100	0	52	30	0	0	69	0.89
4619718--4619885	42	4.0	42	100	0	336	28	19	7	45	1.76
4625047--4625094	21	2.3	20	79	10	51	10	8	12	68	1.39
4625317--4625351	16	2.1	16	89	10	52	68	0	0	31	0.90
4626050--4626084	15	2.5	13	90	9	52	28	0	2	68	1.04
4633097--4633132	17	2.2	17	95	5	65	25	5	5	63	1.38
4637014--4637047	12	2.8	12	100	0	68	23	50	26	0	1.50
4646453--4646546	47	2.0	47	93	0	161	34	13	26	25	1.94
4650395--4650451	25	2.2	26	84	6	80	57	5	8	28	1.50
4650907--4651520	302	2.0	303	82	4	752	36	10	15	36	1.82
4651505--4651532	6	4.7	6	100	0	56	50	0	14	35	1.43
4662886--4662961	36	2.1	36	95	0	134	44	10	6	38	1.65
4668801--4669069	131	2.0	133	87	2	382	39	15	21	23	1.92
4670549--4670576	4	7.0	4	100	0	56	50	0	0	50	1.00
4671182--4671298	39	3.0	39	81	2	119	34	19	17	29	1.94
4681789--4681839	20	2.5	20	81	9	59	64	3	1	29	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4681806--4681873	21	3.1	21	80	4	82	66	1	0	32	1.01
4681806--4681873	22	3.1	22	76	4	75	66	1	0	32	1.01
4686520--4686562	21	2.2	19	83	8	50	55	2	9	32	1.44
4690264--4690382	60	2.0	59	81	4	141	41	16	18	23	1.90
4695125--4695165	21	2.0	21	90	0	64	56	4	2	36	1.34
4697333--4697366	3	11.3	3	100	0	68	0	35	0	64	0.94
4703729--4703772	20	2.1	21	83	4	54	36	4	11	47	1.60
4708202--4708268	19	3.5	19	70	8	55	52	4	13	29	1.60
4708289--4708498	111	1.9	110	82	6	255	47	12	16	23	1.81
4709492--4709520	2	14.5	2	100	0	58	0	48	0	51	1.00

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