genome.fa.s8.2.7.7.80.10.50.1000.30.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  30  of  33  ( 3942 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)
5471351--5471380	2	15.0	2	100	0	60	50	0	0	50	1.00
5471930--5471964	2	17.5	2	100	0	70	51	0	0	48	1.00
5473033--5473086	27	2.0	27	100	0	108	40	11	25	22	1.87
5473243--5473306	23	2.8	23	80	4	67	45	0	0	54	0.99
5478229--5478274	17	2.8	17	87	6	60	58	0	0	41	0.98
5478231--5478284	27	2.0	28	85	10	76	61	0	0	38	0.96
5480524--5480576	23	2.2	24	87	9	74	43	3	0	52	1.19
5483245--5483440	12	17.9	11	72	25	96	57	3	0	38	1.20
5483250--5483433	21	9.0	21	78	13	170	58	2	0	38	1.17
5483272--5483402	34	3.9	35	73	20	111	58	1	0	39	1.07
5483272--5483339	37	1.9	34	88	8	100	54	2	0	42	1.15
5483234--5483360	58	2.3	55	82	8	161	56	3	0	39	1.21
5483623--5483668	6	7.7	6	92	0	74	13	15	36	34	1.86
5490326--5490376	24	2.1	24	88	0	75	29	23	17	29	1.97
5495907--5496025	59	2.0	59	86	3	168	42	10	2	44	1.51
5501822--5501864	20	2.2	20	91	8	70	72	2	0	25	0.97
5501829--5501875	20	2.4	19	83	13	60	72	4	0	23	1.02
5502280--5502327	15	3.1	15	82	11	53	52	0	0	47	1.00
5502277--5502351	29	2.6	29	74	16	73	56	0	1	42	1.08
5502289--5502336	16	3.1	16	80	14	55	52	0	0	47	1.00
5504335--5504388	24	2.2	24	80	9	65	25	1	0	72	0.95
5505047--5505084	11	3.5	11	85	7	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5505036--5505093	21	2.7	21	83	2	80	44	1	0	53	1.10
5505036--5505087	10	5.0	10	79	9	59	46	1	0	51	1.12
5511913--5511937	13	1.9	13	100	0	50	24	28	8	40	1.83
5512720--5512811	43	2.1	44	80	9	100	60	4	2	32	1.28
5516238--5516277	20	2.0	20	85	0	53	45	2	0	52	1.14
5517239--5517275	16	2.3	15	86	13	56	51	0	0	48	1.00
5525647--5525688	20	2.1	20	86	8	59	50	0	0	50	1.00
5526765--5526875	56	2.0	56	98	0	213	27	26	22	24	2.00
5532839--5532872	2	16.5	2	87	6	50	0	47	5	47	1.26
5532932--5532964	2	17.0	2	93	6	59	48	0	0	51	1.00
5538767--5538796	13	2.2	14	94	5	53	70	0	0	30	0.88
5538759--5538824	29	2.3	28	82	10	71	68	1	1	28	1.08
5538885--5538923	19	2.1	19	85	0	51	66	5	0	28	1.12
5539884--5539917	10	3.4	10	91	0	50	38	0	0	61	0.96
5546304--5546328	13	1.9	13	100	0	50	72	8	8	12	1.29
5549130--5549158	2	14.5	2	100	0	58	51	0	0	48	1.00
5549221--5549248	7	4.0	7	100	0	56	28	42	14	14	1.84
5567841--5567894	14	3.7	15	75	12	58	40	0	0	59	0.98
5567792--5567894	44	2.3	45	80	11	113	40	0	0	58	1.05
5567845--5567898	29	1.9	30	85	11	78	38	0	0	61	0.96
5567798--5567907	30	3.7	32	72	18	101	40	0	0	59	1.04
5568339--5568404	19	3.4	18	76	17	69	60	0	0	39	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5568339--5568403	7	9.9	7	79	17	61	60	0	0	40	0.97
5568326--5568403	34	2.4	33	85	10	106	56	0	0	43	0.99
5568327--5568418	14	6.9	14	76	14	59	55	0	0	44	0.99
5568366--5568407	9	4.7	9	85	8	59	59	0	0	40	0.97
5568392--5568449	14	4.1	14	77	20	57	41	0	0	58	0.98
5568391--5568467	29	3.0	25	77	20	79	41	0	0	58	0.98
5568360--5568456	29	3.0	33	83	7	103	49	0	0	50	1.00
5568407--5568468	18	3.9	17	76	22	71	38	0	0	61	0.96
5568401--5568468	29	2.4	29	92	4	113	38	0	0	61	0.96
5569442--5569471	3	10.3	3	92	7	53	30	0	0	70	0.88
5569840--5569867	8	3.5	8	100	0	56	60	0	0	39	0.97
5570677--5570790	19	5.8	19	66	24	58	37	0	0	62	0.96
5570682--5570801	14	8.8	14	67	16	56	39	0	0	60	0.97
5570675--5570777	11	10.0	11	69	20	71	37	0	0	62	0.96
5570708--5570789	20	3.7	22	72	25	59	40	0	0	59	0.97
5570770--5570821	23	2.3	22	81	12	61	44	0	0	55	0.99
5570716--5570820	24	4.5	24	74	15	78	40	0	0	60	0.97
5571380--5571410	7	4.3	7	92	8	53	54	0	0	45	0.99
5571380--5571410	15	2.1	14	94	5	53	54	0	0	45	0.99
5580100--5580129	2	15.0	2	92	0	51	50	3	0	46	1.18
5581346--5581482	65	2.1	65	98	0	265	51	8	15	24	1.71
5582803--5582828	2	13.0	2	100	0	52	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)
5584240--5584307	32	2.1	33	86	8	95	45	1	0	52	1.09
5584477--5584518	21	2.0	20	82	13	50	28	0	2	69	1.01
5584657--5584710	11	4.9	11	76	19	51	27	3	0	68	1.06
5584667--5584710	22	2.1	22	91	8	74	29	4	0	65	1.12
5584673--5584724	22	2.4	21	81	12	61	25	7	1	65	1.30
5584826--5584871	20	2.2	20	88	3	65	30	2	0	67	1.03
5592203--5592244	3	14.3	3	85	5	59	64	2	2	30	1.19
5597884--5597938	26	2.1	26	96	0	101	47	21	5	25	1.72
5600088--5600175	28	3.0	32	75	18	93	54	2	0	43	1.12
5600089--5600174	24	3.5	24	75	15	70	54	2	0	43	1.13
5600707--5600754	19	2.8	17	77	22	55	62	0	0	37	0.95
5601317--5601359	22	2.0	22	85	0	59	44	0	2	53	1.13
5601329--5601372	20	2.1	22	87	8	65	40	0	4	54	1.21
5602148--5602190	2	21.0	2	95	4	77	48	2	0	48	1.14
5602602--5602699	33	3.0	33	90	0	151	35	6	2	56	1.36
5603533--5603602	24	2.8	25	76	12	63	40	1	0	58	1.07
5603572--5603612	20	2.0	21	85	4	57	29	0	0	70	0.87
5605952--5605980	14	2.0	15	93	6	51	41	17	13	27	1.87
5608367--5608672	151	2.0	151	100	0	612	39	17	15	27	1.90
5609439--5609476	20	1.9	20	89	10	60	31	18	21	28	1.97
5613332--5613372	2	21.0	2	87	5	57	43	0	2	53	1.13
5615111--5615140	2	15.0	2	100	0	60	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)
5620302--5620371	35	2.0	35	83	5	88	27	21	20	31	1.98
5629007--5629076	31	2.2	32	84	5	88	42	4	0	52	1.20
5629018--5629077	31	1.9	32	89	3	95	45	0	0	55	0.99
5629473--5629528	19	2.9	19	81	0	67	62	0	0	37	0.95
5630180--5630814	228	2.8	227	79	0	615	28	22	26	22	1.99
5635763--5635851	45	2.0	45	84	0	115	31	25	19	23	1.98
5642588--5642616	2	14.5	2	100	0	58	0	48	0	51	1.00
5651297--5651340	17	2.6	17	86	13	65	29	0	2	68	1.02
5651707--5651739	2	16.5	2	93	0	57	51	3	0	45	1.16
5652224--5652278	22	2.6	22	83	11	62	36	0	3	60	1.15
5659073--5659105	2	16.5	2	100	0	66	48	0	0	51	1.00
5659810--5659836	2	13.5	2	100	0	54	51	0	0	48	1.00
5660559--5660605	17	2.8	17	80	3	60	27	0	2	70	0.99
5660593--5660634	18	2.3	19	80	12	52	38	2	0	59	1.10
5661941--5661992	3	17.3	3	91	0	86	32	3	0	63	1.12
5662381--5662410	2	15.0	2	92	0	51	46	0	3	50	1.18
5669491--5669529	18	2.2	18	95	0	69	41	20	10	28	1.85
5669517--5669712	80	2.4	82	77	6	211	45	11	9	34	1.72
5669517--5669753	41	5.8	41	78	4	187	45	10	10	33	1.73
5669882--5670020	40	3.4	40	82	6	165	51	12	7	29	1.66
5669878--5669988	41	2.7	40	83	4	150	47	14	8	29	1.73
5670827--5670867	10	4.0	10	83	3	55	53	0	4	41	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5671368--5671456	45	2.0	46	84	6	119	42	8	10	38	1.70
5674846--5674887	22	1.9	22	85	9	59	35	0	0	64	0.94
5678063--5678102	2	20.5	2	89	5	64	47	0	0	52	1.00
5689521--5689564	16	2.7	16	82	3	52	43	2	0	54	1.12
5695429--5695464	17	2.1	17	89	0	54	0	16	0	83	0.65
5696571--5696676	45	2.2	48	81	6	128	29	21	30	18	1.97
5696709--5697240	32	17.2	32	89	3	724	18	18	32	30	1.95
5696709--5697240	159	3.4	158	86	6	734	18	18	32	30	1.95
5696753--5697784	27	35.6	28	87	5	464	23	17	33	25	1.96
5697285--5697952	27	24.4	27	92	2	1066	29	14	33	22	1.94

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