genome.fa.s2.2.7.7.80.10.50.1000.12.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  12  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)
4005690--4005729	9	4.4	9	93	0	71	25	10	22	42	1.84
4007821--4007931	38	2.9	38	83	4	134	30	12	18	37	1.88
4008000--4008138	44	3.2	42	83	8	154	25	19	15	39	1.91
4028527--4028687	54	3.0	53	84	8	218	43	13	3	39	1.62
4034181--4034214	16	2.1	16	100	0	68	17	0	11	70	1.16
4035648--4035702	15	3.9	15	79	13	71	25	32	14	27	1.95
4036777--4036827	20	2.5	21	83	3	68	35	0	0	64	0.94
4041974--4042011	15	2.5	16	79	12	53	44	15	31	7	1.75
4042033--4042072	21	1.9	21	84	0	53	30	22	32	15	1.94
4052638--4052790	70	2.2	70	83	2	180	42	9	18	28	1.83
4061919--4061998	20	4.0	20	98	0	151	26	10	23	40	1.86
4063009--4063084	39	2.0	38	87	7	100	32	2	0	64	1.07
4063398--4063443	18	2.3	20	85	10	60	50	15	2	32	1.56
4067266--4067292	2	13.5	2	100	0	54	48	0	0	51	1.00
4073424--4073469	21	2.1	22	88	4	67	8	10	10	69	1.37
4076210--4076256	12	3.8	12	83	8	51	53	8	4	34	1.51
4077271--4077312	5	8.8	5	86	5	52	78	0	2	19	0.86
4078355--4078600	50	4.9	50	70	5	156	26	25	19	28	1.99
4078371--4078600	100	2.3	100	87	1	336	26	25	20	27	1.99
4081136--4081204	25	2.9	25	91	6	108	40	17	18	23	1.91
4082041--4082065	13	1.9	13	100	0	50	64	4	0	32	1.12
4083409--4083447	17	2.3	17	95	0	69	15	15	15	53	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4083427--4083585	61	2.6	61	97	0	309	13	28	11	45	1.79
4097550--4097761	106	2.0	106	100	0	424	43	14	18	23	1.87
4099380--4099426	22	2.1	23	88	4	69	53	21	6	19	1.67
4100255--4100289	16	2.2	16	89	0	52	28	0	2	68	1.04
4101848--4101882	9	4.0	9	85	7	54	65	2	0	31	1.07
4101848--4101891	17	2.6	17	89	3	63	65	2	0	31	1.05
4101847--4101898	16	3.3	15	78	8	50	63	1	1	32	1.16
4102461--4102502	18	2.3	19	87	4	59	33	14	11	40	1.82
4125815--4126176	50	7.2	50	76	0	303	30	20	24	24	1.98
4125865--4126160	100	3.0	100	89	1	432	29	20	23	25	1.99
4125785--4126092	150	2.1	150	83	1	402	30	19	23	25	1.98
4125797--4126142	150	2.3	150	80	1	343	30	20	23	25	1.99
4130236--4130332	8	11.9	8	82	8	97	46	1	0	52	1.07
4130240--4130333	20	5.1	20	73	23	98	47	1	0	51	1.07
4130237--4130333	28	3.5	28	87	5	128	47	1	0	51	1.07
4130721--4130750	15	2.0	15	93	0	51	36	0	13	50	1.42
4134007--4134055	3	16.3	3	100	0	98	32	0	0	67	0.91
4135680--4135740	29	2.3	26	80	20	74	44	8	4	42	1.55
4145056--4145084	15	1.9	15	100	0	58	62	6	6	24	1.45
4158942--4158978	16	2.3	16	90	9	58	27	5	0	67	1.12
4161640--4161716	3	25.3	3	71	7	57	29	6	3	59	1.40
4161444--4161973	260	2.0	261	98	1	1037	26	7	3	62	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4161900--4161973	3	24.3	3	70	8	51	29	6	4	59	1.42
4171865--4171893	14	2.1	14	100	0	58	20	20	24	34	1.97
4188466--4188518	15	3.7	15	75	10	56	60	1	7	30	1.35
4189656--4189702	23	2.1	21	81	14	51	46	2	0	51	1.13
4191417--4191497	31	2.6	30	81	9	92	41	6	11	40	1.65
4194092--4194140	20	2.5	20	83	6	64	57	0	2	40	1.10
4194176--4194223	21	2.3	20	89	6	78	52	0	0	47	1.00
4194326--4194356	16	1.9	16	93	0	53	41	6	0	51	1.27
4194816--4194868	24	2.3	23	83	6	70	45	7	18	28	1.77
4195231--4195269	17	2.3	17	83	12	53	46	0	0	53	1.00
4198906--4198988	35	2.3	35	95	2	148	42	4	0	53	1.22
4202797--4202837	21	2.0	20	85	4	55	4	14	7	73	1.22
4203303--4203362	29	2.2	28	80	11	70	20	5	15	60	1.53
4205423--4205461	7	5.3	7	84	9	51	76	0	0	23	0.78
4205423--4205464	14	2.8	15	89	7	59	76	0	0	23	0.79
4205424--4205464	15	2.6	16	81	14	50	78	0	0	21	0.76
4206303--4206346	16	2.8	16	86	10	63	34	0	2	63	1.07
4218003--4218052	26	1.9	26	83	0	64	18	6	18	58	1.59
4222400--4222431	16	2.0	16	93	0	55	56	3	12	28	1.51
4231439--4231501	27	2.4	24	76	21	63	49	3	6	41	1.44
4231483--4231527	17	2.4	19	82	14	58	57	0	0	42	0.98
4238278--4238342	31	2.1	31	91	0	103	36	6	16	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4242833--4242880	23	2.1	23	84	7	62	31	2	4	62	1.26
4256853--4256887	6	5.8	6	100	0	70	82	0	0	17	0.66
4257516--4258570	212	4.9	214	88	4	1460	34	17	14	33	1.91
4259090--4259211	59	2.1	59	93	0	208	41	9	9	39	1.70
4261009--4261034	3	8.7	3	100	0	52	65	0	0	34	0.93
4263432--4263623	93	2.1	91	87	3	280	42	13	15	29	1.84
4267549--4267585	18	2.1	17	90	5	56	56	0	0	43	0.99
4277934--4278006	32	2.2	33	85	2	103	67	0	1	31	1.00
4277947--4278014	7	9.1	7	84	9	73	67	0	1	30	0.99
4279083--4279121	20	2.0	20	89	0	60	20	0	30	48	1.50
4281346--4281478	30	4.4	30	88	1	160	15	57	6	21	1.60
4281364--4281502	15	9.3	15	74	0	89	15	57	7	19	1.61
4281364--4281502	45	3.1	45	75	0	116	15	57	7	19	1.61
4281468--4281526	30	2.0	30	82	0	73	22	55	10	11	1.65
4289674--4289712	21	1.9	21	89	5	62	53	17	0	28	1.44
4293375--4293400	13	2.0	13	100	0	52	61	0	7	30	1.24
4293500--4293791	43	6.8	42	70	12	146	29	28	20	22	1.98
4293525--4293727	85	2.4	86	85	4	259	27	30	20	21	1.98
4293525--4293771	86	2.9	84	83	4	289	27	29	19	22	1.98
4293496--4293791	86	3.5	85	80	3	256	29	28	19	22	1.98
4294141--4294217	21	3.7	21	80	0	91	6	42	15	35	1.73
4302355--4302394	18	2.2	19	86	8	57	35	22	7	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4302408--4302446	15	2.7	15	84	4	53	48	43	0	7	1.31
4302439--4302683	93	2.7	88	87	7	355	44	25	2	27	1.67
4302665--4302705	13	2.9	14	82	13	57	39	43	0	17	1.49
4302665--4302705	7	5.9	7	83	11	57	39	43	0	17	1.49
4303220--4303930	113	6.3	112	89	3	1041	30	24	22	22	1.99
4303220--4303930	227	3.1	224	89	2	1075	30	24	22	22	1.99
4303220--4303930	340	2.1	339	90	3	1117	30	24	22	22	1.99
4304985--4305009	9	2.8	9	100	0	50	64	12	12	12	1.51
4307048--4307072	8	3.1	8	100	0	50	48	0	0	52	1.00
4307334--4307408	30	2.5	30	82	8	91	64	1	6	28	1.27
4318724--4318809	30	2.8	31	79	11	97	38	2	16	43	1.61
4322154--4322188	12	2.9	12	86	0	52	42	48	8	0	1.33
4324471--4324524	16	3.5	15	79	18	58	31	1	0	66	1.02
4329583--4329608	12	2.2	12	100	0	52	57	15	7	19	1.62
4333927--4333970	20	2.1	20	83	8	52	34	4	0	61	1.16
4333939--4333990	20	2.7	20	82	11	63	30	3	0	65	1.10
4333939--4334019	19	4.3	18	78	12	83	30	6	0	62	1.19
4333937--4334064	38	3.4	38	74	18	92	30	7	0	62	1.22
4333937--4334129	9	21.0	9	69	20	89	30	6	0	63	1.18
4334026--4334077	17	2.8	19	82	14	72	26	5	0	67	1.13
4334968--4335142	34	5.2	32	65	24	110	32	4	3	60	1.32
4334999--4335178	36	5.2	36	65	24	136	31	4	5	59	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4334968--4335187	68	3.2	68	100	0	440	32	4	4	59	1.35
4334968--4335213	136	1.8	135	91	5	406	32	4	4	58	1.37
4347726--4347765	21	1.9	21	85	10	55	47	5	0	47	1.24
4348199--4348232	16	2.1	16	89	10	52	50	0	47	2	1.16
4357897--4357928	6	5.3	6	100	0	64	50	0	15	34	1.45
4358809--4358856	21	2.4	19	86	6	60	64	4	0	31	1.12
4360701--4360738	17	2.3	17	86	4	51	60	0	0	39	0.97
4370897--4370940	16	2.8	16	78	0	52	45	0	2	52	1.13
4370901--4370961	25	2.3	26	83	5	70	47	0	3	49	1.18
4370924--4370985	18	3.4	19	81	16	69	45	0	3	51	1.17

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