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: Gbar_D03
Parameters: 2 7 7 80 10 50 1000
Length:  50986338

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   

This is table  16  of  170  ( 20315 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)
4473683--4473726	22	2.0	23	86	13	65	15	9	6	68	1.38
4474345--4474387	18	2.4	18	88	0	59	41	44	2	11	1.53
4474495--4474561	9	7.4	9	87	0	98	23	7	23	44	1.79
4474495--4474571	18	4.3	18	89	0	100	23	6	22	48	1.74
4474495--4474571	27	2.9	27	84	0	100	23	6	22	48	1.74
4481068--4481103	18	2.0	18	88	0	54	50	0	5	44	1.25
4481406--4481456	19	2.6	20	79	14	61	27	1	7	62	1.33
4488925--4488957	16	1.9	18	88	11	52	33	0	9	57	1.30
4489278--4490119	308	2.7	307	80	7	897	36	14	10	39	1.80
4499757--4499793	19	1.9	19	88	0	56	59	10	0	29	1.31
4502940--4502972	16	2.0	17	88	5	50	42	3	0	54	1.15
4517684--4517779	9	11.0	9	72	8	74	34	3	18	43	1.66
4518191--4518256	33	2.0	33	93	0	114	36	6	13	43	1.69
4518907--4518968	22	3.0	22	75	22	80	48	24	11	16	1.78
4518901--4518955	22	2.9	17	76	23	65	52	21	10	14	1.72
4520056--4520352	126	2.4	125	80	6	343	29	18	17	34	1.94
4520642--4520876	7	32.4	7	68	13	84	45	33	1	20	1.59
4520924--4520971	7	6.9	7	82	0	60	43	39	2	14	1.57
4521016--4521082	7	9.6	7	70	6	55	44	28	1	25	1.63
4522554--4523183	315	2.0	315	98	0	1224	37	13	18	30	1.90
4523559--4523586	8	3.5	8	100	0	56	21	14	0	64	1.29
4523782--4523815	13	2.6	13	85	0	50	38	0	2	58	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4529719--4529758	18	2.3	18	86	4	55	10	10	2	77	1.08
4530325--4530357	14	2.3	15	89	5	50	81	3	0	15	0.80
4530876--4530917	21	2.0	21	85	0	57	42	7	9	40	1.65
4534803--4534836	13	2.6	13	85	0	50	14	26	0	58	1.36
4539296--4539658	23	16.1	23	71	11	214	32	3	25	38	1.72
4541140--4541223	28	3.0	27	87	3	105	32	26	21	20	1.98
4541334--4541430	26	3.7	26	87	0	122	36	17	25	20	1.94
4541347--4541421	14	5.7	13	68	24	50	36	14	26	22	1.93
4541599--4541878	27	10.4	27	78	3	244	18	16	20	43	1.88
4541599--4541877	81	3.5	81	82	5	298	18	16	20	44	1.87
4546179--4546221	21	2.0	21	86	8	61	34	0	6	58	1.25
4546204--4546281	38	2.1	37	83	7	95	43	2	2	51	1.29
4546440--4546533	44	2.1	44	84	15	122	37	25	4	32	1.76
4546515--4546569	16	3.4	16	82	0	74	30	23	7	38	1.82
4547957--4547985	15	1.9	15	100	0	58	41	3	0	55	1.17
4548773--4548798	11	2.4	11	100	0	52	38	7	0	53	1.30
4548784--4548836	26	2.0	26	85	0	70	30	1	3	64	1.22
4551078--4551150	29	2.5	29	95	0	128	52	8	12	27	1.67
4551708--4551733	4	6.5	4	100	0	52	23	0	0	76	0.78
4567117--4567166	19	2.5	20	74	6	57	24	4	8	64	1.38
4568673--4568711	7	5.6	7	93	0	60	20	0	46	33	1.51
4568779--4569224	126	3.6	126	89	2	641	31	15	23	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4570486--4570523	20	1.9	20	89	10	60	55	5	2	36	1.37
4571455--4571554	51	2.0	51	86	4	139	45	2	26	27	1.65
4571532--4571588	11	5.1	11	84	2	69	45	1	29	22	1.63
4571514--4571588	33	2.2	34	81	9	91	45	1	28	25	1.62
4571535--4571588	22	2.4	23	87	6	83	46	1	27	24	1.63
4571756--4571853	39	2.5	40	77	1	108	18	25	30	25	1.98
4574996--4575060	31	2.1	31	85	8	87	55	9	10	24	1.63
4575015--4575075	31	2.0	31	87	6	88	55	9	6	27	1.57
4576236--4577263	308	3.4	297	77	9	803	35	14	10	38	1.82
4578095--4578135	21	2.0	21	90	0	64	48	21	12	17	1.79
4583481--4583520	13	3.1	13	82	10	55	55	12	15	17	1.70
4587038--4587072	18	2.0	18	88	5	54	11	28	45	14	1.79
4588033--4588072	18	2.2	18	86	0	53	42	2	20	35	1.65
4592450--4592521	22	3.2	21	70	14	63	44	11	16	27	1.82
4592426--4592522	46	2.1	46	94	0	167	42	11	18	27	1.85
4592425--4592505	24	3.5	24	72	13	78	41	11	18	28	1.84
4592441--4592514	24	3.2	24	70	14	73	43	14	14	27	1.85
4594403--4594437	3	11.7	3	100	0	70	68	0	0	31	0.90
4596585--4596616	15	2.1	15	94	0	55	37	6	6	50	1.53
4597491--4597525	16	2.1	17	89	5	54	37	0	5	57	1.23
4603994--4604022	12	2.4	12	100	0	58	41	0	0	58	0.98
4605561--4605648	45	2.0	45	84	8	117	22	15	18	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4606345--4606378	17	1.9	18	88	5	52	38	0	26	35	1.57
4612592--4612657	21	3.1	21	86	0	96	51	12	16	19	1.75
4616872--4616918	19	2.5	19	86	6	60	25	21	10	42	1.85
4620076--4620108	13	2.6	13	90	4	50	81	0	12	6	0.85
4621092--4621390	44	6.8	44	67	10	137	28	18	26	27	1.98
4621087--4621390	132	2.3	132	90	1	466	27	18	26	27	1.98
4621462--4621556	44	2.2	44	86	3	129	28	17	26	27	1.98
4629726--4629758	12	2.8	12	100	0	66	18	15	9	57	1.63
4630782--4630826	22	2.0	22	82	4	54	37	0	2	60	1.09
4637032--4637070	20	1.9	21	89	5	62	25	33	15	25	1.95
4651714--4651750	20	2.0	20	89	10	60	43	5	10	40	1.63
4652334--4652363	9	3.3	9	100	0	60	20	10	0	70	1.16
4654293--4654411	57	2.1	58	88	1	177	43	3	4	48	1.38
4654298--4654431	57	2.4	56	81	8	155	43	2	5	48	1.40
4660167--4660195	14	2.0	15	93	6	51	20	13	3	62	1.46
4660313--4660346	14	2.4	14	90	0	50	14	0	2	82	0.79
4664191--4664243	17	3.1	17	75	24	58	67	0	32	0	0.91
4664323--4664374	17	3.2	16	82	17	63	78	0	21	0	0.74
4664304--4664376	26	2.8	25	86	12	94	76	0	23	0	0.78
4664442--4664495	19	2.8	20	83	13	60	29	42	27	0	1.56
4664445--4664500	23	2.7	20	81	13	69	30	41	28	0	1.57
4667138--4667182	22	2.0	22	100	0	90	31	13	8	46	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4670088--4670141	27	2.0	27	100	0	108	25	3	29	40	1.73
4671918--4671959	18	2.5	17	85	11	59	76	2	4	16	1.07
4671918--4671975	16	3.5	16	81	11	64	72	3	5	18	1.18
4672045--4672088	12	3.6	12	84	12	54	72	0	2	25	0.96
4672037--4672100	13	5.0	13	83	12	64	71	3	1	23	1.08
4672189--4672227	14	2.6	15	84	12	53	74	2	0	23	0.94
4672195--4672226	14	2.3	14	94	0	55	75	3	0	21	0.95
4676028--4676054	14	1.9	14	100	0	54	22	3	14	59	1.51
4684515--4684541	14	1.9	14	100	0	54	33	0	0	66	0.92
4685653--4685957	101	3.0	101	95	0	529	36	11	25	26	1.90
4687726--4687770	19	2.4	19	85	7	56	35	2	6	55	1.38
4687776--4687848	18	3.9	18	73	21	60	34	4	8	53	1.50
4693954--4694366	88	4.7	88	91	0	673	29	27	23	19	1.98
4693968--4694366	44	9.1	44	63	9	186	28	28	23	19	1.98
4694364--4694606	44	5.6	44	69	7	181	28	21	22	27	1.99
4694344--4694614	87	3.1	87	91	0	416	29	22	22	25	1.99
4694407--4694548	43	3.3	43	69	5	133	23	26	23	26	2.00
4694623--4694726	44	2.4	44	80	3	111	29	21	20	28	1.98
4695110--4695143	14	2.5	14	85	4	52	29	35	14	20	1.93
4696003--4696047	24	1.9	24	90	4	74	26	6	0	66	1.16
4696003--4696045	11	3.7	11	79	11	50	25	4	0	69	1.07
4696261--4696315	26	2.1	26	82	0	65	30	5	7	56	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4701447--4701485	19	2.1	19	90	4	62	35	15	15	33	1.89
4701803--4702087	7	40.9	7	70	12	95	45	33	0	20	1.52
4701877--4701955	41	1.9	41	84	0	104	48	29	0	22	1.51
4701949--4702004	29	1.9	29	85	0	76	42	39	0	17	1.50
4701977--4702158	20	8.8	20	70	20	85	45	31	1	21	1.59
4701930--4702080	70	2.1	70	83	10	184	45	33	0	20	1.51
4701949--4702087	63	2.2	63	80	12	153	46	34	0	19	1.50
4702715--4703005	50	5.7	50	88	2	384	22	30	20	26	1.98
4706734--4706762	13	2.3	13	94	5	51	31	3	20	44	1.68
4706716--4706744	14	2.0	15	93	6	51	24	0	20	55	1.44

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