genome.fa.s64.2.7.7.80.10.50.1000.31.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: Scaffold64
Parameters: 2 7 7 80 10 50 1000
Length:  7997333

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   

This is table  31  of  45  ( 5312 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)
5477596--5477637	22	2.0	21	85	4	57	38	4	2	54	1.34
5477622--5477656	16	2.2	16	89	0	52	40	2	2	54	1.30
5477920--5477990	24	2.7	28	80	14	80	50	0	0	49	1.00
5477934--5477996	28	2.3	28	83	8	76	57	0	0	42	0.99
5477920--5477996	25	3.0	24	76	14	73	53	0	0	46	1.00
5478204--5478235	16	2.0	16	93	0	55	40	0	0	59	0.97
5478362--5478420	28	2.1	27	82	17	75	61	1	0	37	1.07
5478786--5478818	6	5.7	6	96	3	59	0	12	0	87	0.53
5478889--5478997	12	9.6	11	70	22	50	39	0	0	60	0.97
5478884--5478925	19	2.2	20	91	4	68	35	0	0	64	0.94
5478884--5479002	33	3.6	32	72	20	93	40	0	0	59	0.97
5478889--5479003	25	4.5	24	71	20	65	40	0	0	60	0.97
5478917--5478979	26	2.4	25	84	7	72	44	0	0	55	0.99
5481921--5481960	15	2.6	15	92	4	62	50	2	5	42	1.37
5481969--5482025	18	3.4	17	79	18	66	63	1	0	35	1.05
5481969--5482029	16	3.6	17	76	10	63	63	1	0	34	1.04
5482671--5482705	17	2.0	18	88	5	54	65	0	0	34	0.93
5482862--5483112	132	1.9	129	82	9	312	38	3	15	42	1.64
5484940--5484989	13	3.8	13	76	5	55	54	0	4	42	1.19
5486924--5486953	8	3.9	8	91	8	53	0	10	0	90	0.47
5486921--5486953	15	2.2	15	94	0	57	0	12	0	87	0.53
5490510--5490547	2	19.0	2	100	0	76	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5492498--5492768	74	3.9	64	70	20	170	33	1	9	55	1.42
5492628--5492768	73	1.9	72	90	4	221	31	0	10	56	1.38
5495889--5495932	23	1.9	24	86	9	65	40	22	6	29	1.80
5496416--5496463	20	2.5	19	93	3	78	45	14	10	29	1.78
5498700--5498766	33	2.0	33	88	0	98	34	11	13	40	1.81
5498720--5498744	13	1.9	13	100	0	50	36	16	16	32	1.90
5498807--5498831	13	1.9	13	100	0	50	32	16	16	36	1.90
5498840--5498967	52	2.5	52	92	3	215	34	17	17	30	1.93
5503718--5503862	39	3.7	39	76	0	130	40	13	2	42	1.59
5504420--5504464	21	2.1	21	83	0	54	48	4	11	35	1.59
5509696--5509780	41	2.0	42	90	2	136	28	8	21	42	1.81
5510870--5511222	177	2.0	177	97	0	661	26	11	22	40	1.87
5516537--5516563	14	1.9	14	100	0	54	40	0	0	59	0.98
5516541--5516566	12	2.2	12	100	0	52	42	0	0	57	0.98
5520620--5520664	16	2.8	17	74	19	51	60	4	0	35	1.17
5520835--5520879	22	2.2	22	84	11	60	60	13	0	26	1.34
5520953--5520977	12	2.1	12	100	0	50	68	8	0	24	1.16
5520956--5521138	99	1.8	99	90	0	294	50	10	8	30	1.66
5522033--5522085	16	3.4	16	75	15	65	52	0	0	47	1.00
5522203--5522244	2	21.5	2	95	4	77	47	0	0	52	1.00
5522499--5522571	34	2.1	35	92	2	121	39	2	5	52	1.39
5522755--5522792	20	1.9	20	100	0	76	44	5	0	50	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5522754--5522798	20	2.3	19	88	11	72	46	6	0	46	1.29
5524068--5524094	2	13.5	2	100	0	54	51	0	0	48	1.00
5530349--5530374	13	2.0	13	100	0	52	30	15	15	38	1.88
5530413--5530486	20	3.7	19	87	7	103	27	17	13	41	1.87
5532805--5532952	51	2.9	51	83	3	172	29	26	9	34	1.88
5532888--5533315	79	5.5	78	83	3	495	27	25	14	32	1.95
5536181--5536291	52	2.1	52	90	3	179	32	28	11	27	1.92
5536186--5536270	26	3.3	26	68	6	82	32	28	12	25	1.93
5536882--5536942	15	4.1	15	72	8	61	13	39	22	24	1.90
5541177--5541237	31	2.0	31	93	0	104	49	3	8	39	1.49
5541425--5541475	17	2.9	19	75	19	56	43	7	7	41	1.63
5541484--5541527	18	2.4	18	81	7	54	40	2	6	50	1.42
5541924--5541973	15	3.6	14	76	17	59	50	0	0	50	1.00
5541918--5542006	27	3.4	27	75	16	80	49	0	1	49	1.08
5543699--5544438	165	4.5	165	84	6	869	26	10	9	52	1.67
5545858--5546452	152	3.8	157	83	7	712	34	11	13	40	1.81
5545858--5546454	159	3.8	156	80	8	617	34	11	13	40	1.81
5549026--5549078	4	13.5	4	80	7	56	0	24	0	75	0.80
5549035--5549081	17	2.8	18	87	12	73	0	27	0	72	0.85
5549031--5549078	25	1.9	25	91	0	78	0	25	0	75	0.81
5549256--5549281	11	2.4	11	100	0	52	61	0	0	38	0.96
5549960--5549993	12	2.9	12	91	4	52	0	32	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5551030--5551066	8	4.9	8	80	12	51	75	0	0	24	0.80
5551025--5551060	14	2.7	13	91	8	63	77	0	0	22	0.76
5551151--5551206	14	4.0	14	75	6	51	64	7	1	26	1.29
5551367--5551414	25	1.9	25	82	0	60	54	0	2	43	1.12
5551489--5551538	13	4.0	12	85	14	66	68	0	2	30	1.01
5551489--5551538	7	8.0	6	87	12	66	68	0	2	30	1.01
5551754--5551794	19	2.2	18	91	4	64	41	0	0	58	0.98
5551813--5551849	17	2.1	18	90	5	58	29	5	2	62	1.31
5551962--5552015	16	3.4	16	84	5	65	46	1	0	51	1.11
5552250--5552286	18	2.1	18	90	5	58	67	8	0	24	1.17
5552358--5552407	8	6.2	8	73	17	50	4	14	0	82	0.82
5552357--5552406	26	2.0	26	96	4	93	6	14	0	80	0.90
5552534--5552605	38	1.9	37	82	2	90	56	1	5	36	1.31
5552574--5552621	20	2.3	20	82	13	53	56	2	6	35	1.36
5552627--5552684	23	2.6	22	79	15	66	65	0	0	34	0.93
5552614--5552688	37	2.0	37	82	5	89	65	0	0	34	0.93
5552625--5552699	23	3.3	21	75	14	62	61	1	1	36	1.13
5553510--5553539	2	15.0	2	100	0	60	50	0	0	50	1.00
5554925--5554970	15	3.1	14	84	9	65	36	0	0	63	0.95
5554909--5554966	6	8.3	7	76	17	50	29	0	0	70	0.87
5554914--5554970	30	2.0	26	87	12	78	31	0	0	68	0.90
5554925--5554985	29	2.1	28	82	8	70	39	0	1	59	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5555650--5555704	25	2.2	24	83	6	65	32	1	3	61	1.24
5556129--5556186	19	3.0	20	80	12	68	29	5	6	58	1.46
5556656--5556706	22	2.4	21	81	15	61	47	0	0	52	1.00
5559400--5559437	11	3.5	11	82	7	51	73	0	0	26	0.83
5559398--5559434	10	3.6	10	85	7	56	75	0	0	24	0.80
5562164--5562234	32	2.2	32	82	0	79	46	4	4	45	1.42
5562185--5562278	32	3.0	32	87	6	140	45	2	0	52	1.12
5562185--5562266	16	5.3	15	88	8	121	46	0	0	53	1.00
5566072--5566150	28	2.9	29	88	7	112	22	7	21	48	1.75
5567636--5567665	14	2.1	14	93	0	51	40	6	10	43	1.64
5568122--5568147	13	2.0	13	100	0	52	30	7	15	46	1.74
5568577--5568893	155	2.1	154	88	1	465	30	11	9	48	1.71
5569692--5569767	32	2.3	33	81	6	82	61	0	1	36	1.04
5569919--5569950	2	16.0	2	100	0	64	50	0	0	50	1.00
5570647--5570700	22	2.5	20	77	16	54	18	0	5	75	0.98
5572195--5572260	33	2.0	33	91	2	107	19	16	28	34	1.94
5577426--5577455	7	4.3	7	100	0	60	56	13	0	30	1.37
5579691--5579792	45	2.3	45	81	6	118	52	1	2	42	1.27
5580169--5580215	24	2.0	23	88	12	69	48	0	0	51	1.00
5580348--5580380	15	2.1	16	88	5	50	30	0	6	63	1.18
5581038--5581100	29	2.1	31	82	11	78	39	0	0	60	0.97
5581150--5581180	5	6.2	5	92	0	53	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5581249--5581349	15	6.6	15	70	7	69	53	2	2	40	1.31
5582913--5582950	13	2.6	14	80	19	51	42	0	0	57	0.98
5582976--5583006	16	1.9	16	93	0	53	41	3	0	54	1.16
5583022--5583060	5	7.6	5	88	11	53	56	0	0	43	0.99
5583023--5583082	27	2.2	27	80	14	70	50	1	1	46	1.21
5583368--5583392	2	12.5	2	100	0	50	52	0	0	48	1.00
5584685--5584724	21	2.0	20	90	5	62	32	7	0	60	1.25
5587653--5587686	2	17.0	2	93	0	59	47	0	2	50	1.16
5588627--5588699	32	2.3	33	79	13	82	45	0	0	54	0.99
5593554--5593590	15	2.5	15	95	0	65	21	29	0	48	1.50

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