genome.fa.s7.2.7.7.80.10.50.1000.27.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: Scaffold7
Parameters: 2 7 7 80 10 50 1000
Length:  6555642

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   

This is table  27  of  37  ( 4421 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)
4631589--4631635	23	2.1	23	88	11	71	55	0	2	42	1.12
4638367--4638424	21	2.8	21	86	2	82	31	10	10	48	1.71
4641298--4641451	33	4.8	32	80	5	141	22	28	14	34	1.93
4641457--4641709	33	7.9	31	78	8	222	32	32	15	19	1.93
4641806--4642031	113	2.0	113	81	3	267	24	23	10	41	1.86
4648096--4648220	20	5.7	20	73	18	97	44	10	13	32	1.78
4650647--4650705	32	1.9	30	83	13	75	59	10	10	20	1.58
4650987--4651012	13	2.0	13	100	0	52	30	15	15	38	1.88
4650966--4651030	32	2.0	33	87	6	96	27	13	16	41	1.87
4656506--4656531	13	2.0	13	100	0	52	30	15	15	38	1.88
4656485--4656549	32	2.0	33	87	6	96	27	13	16	41	1.87
4658622--4658775	78	2.0	78	80	2	175	29	15	16	37	1.90
4658656--4658803	78	1.9	78	80	0	170	29	14	14	41	1.86
4661206--4661252	24	2.0	24	91	0	76	42	10	23	23	1.85
4661313--4661363	19	2.6	20	90	3	77	39	17	15	27	1.90
4661292--4661364	20	3.7	19	77	16	78	38	16	15	30	1.89
4665372--4665575	51	3.9	52	83	5	259	54	4	0	39	1.28
4665373--4665571	104	1.9	106	87	6	298	54	4	1	39	1.27
4665598--4665622	2	12.5	2	100	0	50	48	0	0	52	1.00
4666462--4666516	21	2.5	21	76	8	56	63	0	0	36	0.95
4666992--4667100	54	2.0	54	98	0	209	26	4	8	60	1.45
4667081--4667106	2	13.0	2	100	0	52	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)
4668111--4668135	13	1.9	13	100	0	50	72	8	0	20	1.10
4668877--4668938	25	2.7	22	80	11	72	45	0	1	53	1.10
4671238--4671302	20	3.0	21	80	17	80	30	13	12	43	1.81
4673784--4673856	28	2.6	28	86	0	92	26	32	16	24	1.96
4673949--4674118	51	3.3	51	85	3	225	32	25	8	32	1.87
4674093--4674146	28	2.0	28	85	7	76	25	25	18	29	1.98
4681415--4681455	20	2.0	21	85	4	57	46	0	0	53	1.00
4684629--4685098	79	5.9	80	81	7	455	28	23	14	34	1.93
4684629--4685098	158	3.0	156	82	7	506	28	23	14	34	1.93
4684630--4685118	80	6.2	78	82	8	444	28	23	14	33	1.94
4685436--4685462	13	2.1	13	100	0	54	29	14	14	40	1.86
4685448--4685503	19	2.9	19	84	5	76	35	12	16	35	1.86
4685448--4685502	20	2.8	20	86	2	76	34	12	16	36	1.87
4685532--4685597	20	3.7	20	73	26	83	33	15	18	33	1.92
4685547--4685610	13	5.4	13	75	21	68	34	15	15	34	1.90
4685531--4685611	33	2.5	33	100	0	162	32	14	18	34	1.91
4691921--4691967	22	2.2	22	85	14	64	31	21	0	46	1.51
4694286--4694340	20	2.8	20	88	2	76	34	12	16	36	1.87
4701273--4702337	62	17.3	62	77	8	928	23	24	18	33	1.97
4701545--4701660	40	2.8	41	78	11	121	23	25	9	42	1.84
4701273--4701546	123	2.2	123	86	0	361	22	25	19	32	1.97
4702303--4702373	36	2.0	36	91	0	115	22	19	30	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4702358--4702711	43	8.4	42	81	6	392	21	24	12	40	1.89
4702361--4702710	127	2.7	128	85	3	456	21	24	12	40	1.88
4702728--4702823	40	2.5	38	82	3	111	18	21	14	44	1.86
4703447--4703503	20	2.8	20	78	0	78	22	14	10	52	1.71
4704472--4704507	2	18.0	2	94	0	63	47	50	2	0	1.15
4707043--4707085	12	3.5	13	84	12	56	79	0	18	2	0.85
4711735--4711759	13	1.9	13	100	0	50	32	16	16	36	1.90
4711715--4711778	32	2.0	33	87	3	94	29	14	17	39	1.88
4712405--4712495	39	2.3	41	79	9	107	34	23	5	37	1.78
4713844--4713886	20	2.1	20	86	4	59	9	30	44	16	1.79
4714329--4714365	13	2.8	13	95	0	65	37	16	16	29	1.90
4716440--4716470	15	2.1	15	93	0	53	12	22	16	48	1.80
4716985--4717052	27	2.6	25	86	8	109	33	27	10	27	1.89
4717567--4717631	20	3.6	20	73	26	81	27	12	15	44	1.82
4717587--4717644	13	3.9	13	73	26	53	29	13	15	41	1.86
4717567--4717663	33	3.0	33	93	1	160	28	13	16	41	1.86
4726804--4726857	20	2.7	20	88	0	81	42	12	14	29	1.83
4726909--4726933	13	1.9	13	100	0	50	32	16	16	36	1.90
4728368--4728449	28	2.9	28	80	7	96	26	17	31	24	1.97
4728432--4728602	51	3.3	51	79	4	198	32	11	26	29	1.92
4728585--4728660	27	2.8	28	88	6	102	21	21	34	23	1.97
4728644--4728779	51	2.6	51	79	13	143	32	9	25	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4731125--4731150	13	2.0	13	100	0	52	38	15	15	30	1.88
4731104--4731170	33	2.0	33	88	0	98	43	16	14	25	1.86
4731190--4731257	19	3.9	18	76	23	83	38	14	11	35	1.83
4731212--4731236	13	1.9	13	100	0	50	32	16	16	36	1.90
4731193--4731255	32	2.0	32	96	0	117	36	15	12	34	1.86
4731293--4731350	21	2.7	22	81	7	75	32	12	15	39	1.84
4731912--4732708	55	14.3	55	85	7	965	22	20	28	28	1.99
4731958--4732047	26	3.3	26	66	19	67	20	18	33	27	1.96
4731984--4732072	29	3.2	29	65	26	82	21	19	31	28	1.97
4732466--4732548	27	3.0	27	60	16	62	21	19	30	28	1.98
4733691--4733749	13	4.8	12	81	10	66	0	6	8	84	0.77
4733674--4733748	14	5.8	12	76	16	62	0	10	5	84	0.78
4733690--4733747	24	2.4	24	82	5	73	0	8	6	84	0.78
4733675--4733749	36	2.0	39	82	12	95	0	10	6	82	0.83
4746149--4746232	29	2.9	29	81	8	93	26	16	30	26	1.97
4746215--4746385	51	3.3	51	79	4	198	32	11	26	29	1.92
4813658--4813722	33	2.0	33	84	0	85	32	13	13	40	1.85
4813752--4813805	19	2.8	20	85	2	74	37	16	16	29	1.91
4813776--4813837	33	1.9	32	87	9	90	43	17	12	25	1.85
4816347--4816444	20	5.6	20	69	30	98	43	13	15	27	1.83
4816347--4816442	33	2.9	33	100	0	192	43	12	15	28	1.83
4823031--4823080	11	4.5	11	87	9	75	8	12	0	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4823675--4823718	19	2.2	20	88	4	63	75	6	0	18	1.02
4823703--4823927	120	1.9	119	88	1	344	54	14	6	24	1.64
4825354--4825396	19	2.3	18	84	4	59	74	0	0	25	0.82
4826835--4826867	17	1.9	17	100	0	66	51	12	6	30	1.63
4827394--4827447	20	2.7	20	85	8	65	37	12	12	37	1.83
4827887--4828021	34	4.0	33	88	4	180	32	14	25	27	1.94
4827887--4828021	68	2.0	68	88	2	200	32	14	25	27	1.94
4830557--4830585	12	2.4	12	100	0	58	17	0	24	58	1.38
4830741--4830778	20	1.9	20	94	0	67	44	15	10	28	1.80
4830914--4830963	21	2.4	21	77	9	59	40	26	4	30	1.74
4833912--4834048	34	4.0	34	89	2	195	34	12	26	27	1.92
4836573--4836689	31	3.8	31	86	0	135	12	17	35	34	1.88
4837045--4837102	30	1.9	31	89	3	91	24	10	17	48	1.78
4843442--4843633	55	3.5	56	73	11	164	40	16	18	25	1.91
4846265--4846292	13	2.2	13	100	0	56	35	14	17	32	1.90
4846338--4846393	19	2.9	19	81	2	67	33	16	17	32	1.92
4846378--4846403	13	2.0	13	100	0	52	38	15	15	30	1.88
4853289--4853353	33	2.0	33	84	0	85	32	13	13	40	1.85
4853383--4853436	19	2.8	20	85	2	74	37	16	16	29	1.91
4853407--4853468	33	1.9	32	87	9	90	43	17	12	25	1.85
4855979--4856076	20	5.6	20	69	30	98	43	13	15	27	1.83
4855979--4856074	33	2.9	33	100	0	192	43	12	15	28	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4862663--4862712	11	4.5	11	87	9	75	8	12	0	80	0.92
4863307--4863350	19	2.2	20	88	4	63	75	6	0	18	1.02
4863335--4863559	120	1.9	119	88	1	344	54	14	6	24	1.64
4864986--4865028	19	2.3	18	84	4	59	74	0	0	25	0.82
4866408--4866547	69	2.0	69	81	8	160	47	12	10	30	1.75
4866476--4866628	59	2.6	58	79	8	159	45	13	12	28	1.80
4866601--4866801	58	3.5	58	75	4	181	48	13	10	26	1.76
4869196--4869248	27	2.0	27	100	0	106	35	26	11	26	1.90
4871267--4871296	15	2.1	15	93	6	53	60	3	0	36	1.14
4872861--4872917	16	3.6	16	87	0	78	19	12	24	43	1.85

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