genome.fa.s1041.2.7.7.80.10.50.1000.2.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: Scaffold1041
Parameters: 2 7 7 80 10 50 1000
Length:  1020100

Tables:   1   2   3   4   

This is table  2  of  4  ( 440 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)
220099--220129	2	15.5	2	93	0	53	3	0	45	51	1.17
220384--220424	2	20.5	2	100	0	82	0	48	0	51	1.00
224409--224546	51	2.7	51	80	3	152	43	11	13	31	1.80
224643--224682	20	2.0	20	100	0	80	35	25	5	35	1.78
233034--233065	10	3.1	11	91	8	50	43	0	0	56	0.99
234864--234890	14	1.9	14	100	0	54	37	7	0	55	1.28
235544--235926	190	2.0	191	92	1	633	37	21	9	32	1.86
237600--237630	3	10.3	3	100	0	62	32	0	0	67	0.91
239647--239673	2	13.5	2	100	0	54	0	48	0	51	1.00
239699--239737	3	13.3	3	94	5	71	33	0	33	33	1.58
240625--240710	44	2.0	43	93	4	147	20	16	12	50	1.78
243358--243382	3	8.3	3	100	0	50	0	32	32	36	1.58
243381--243410	3	10.0	3	92	0	51	0	36	0	63	0.95
245956--246007	2	26.0	2	96	0	95	0	48	1	50	1.12
252854--252922	35	2.0	35	88	5	104	46	1	8	43	1.43
253601--253644	17	2.7	15	80	13	52	52	0	0	47	1.00
255844--255927	42	2.0	42	81	11	100	23	34	0	41	1.55
256029--256069	20	2.0	20	90	0	64	48	4	9	36	1.58
261504--261528	2	12.5	2	100	0	50	48	52	0	0	1.00
261731--261757	2	13.5	2	100	0	54	51	0	48	0	1.00
269303--269327	3	8.3	3	100	0	50	32	0	0	68	0.90
274475--274525	22	2.4	22	78	12	61	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
274489--274583	46	2.0	46	80	9	104	42	0	1	56	1.06
274963--275011	3	16.0	3	79	12	55	0	30	0	69	0.89
276977--277001	7	3.6	7	100	0	50	56	0	44	0	0.99
286178--286235	16	3.6	16	80	0	71	31	0	5	63	1.16
286173--286245	32	2.2	33	79	16	89	26	0	9	64	1.24
286234--286278	16	2.8	16	83	6	56	11	2	17	68	1.29
286429--286467	16	2.5	16	87	4	53	41	0	2	56	1.13
286451--286520	22	3.3	20	77	13	70	45	1	4	48	1.30
287384--287413	15	1.9	16	93	6	53	30	0	3	66	1.07
287360--287402	22	2.0	22	100	0	86	37	0	6	55	1.27
287377--287468	43	2.2	41	81	9	98	44	0	2	53	1.12
287566--287596	16	1.9	16	93	0	53	35	3	0	61	1.12
294839--294874	2	18.0	2	88	0	54	50	5	0	44	1.25
301833--301859	4	6.8	4	100	0	54	22	0	0	77	0.76
308261--308298	17	2.2	17	86	13	51	47	5	0	47	1.24
308373--308442	26	2.7	24	81	14	77	65	2	1	30	1.15
308474--308508	4	9.0	4	87	6	54	0	22	0	77	0.78
308473--308507	16	2.2	16	94	0	61	0	20	0	80	0.72
308604--308713	20	5.4	20	71	18	77	62	0	0	36	1.01
308604--308637	11	3.2	11	83	8	52	70	0	0	29	0.87
308616--308745	60	2.3	58	79	14	144	57	0	0	41	1.04
308687--308745	17	3.4	17	88	2	82	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
308678--308742	10	7.2	9	77	10	62	55	0	0	44	0.99
310011--310050	19	2.0	20	85	4	55	65	5	2	27	1.27
310191--310238	21	2.3	21	85	0	69	60	6	2	31	1.33
310254--310324	31	2.3	30	83	9	81	66	1	0	32	1.01
310233--310331	51	2.0	47	81	11	110	65	2	0	32	1.04
310492--310603	13	9.1	12	68	21	63	64	1	0	33	1.10
310497--310544	21	2.3	21	88	0	78	62	4	2	31	1.26
310181--310803	306	2.0	307	96	2	1140	42	12	5	38	1.67
310529--310599	10	7.3	10	70	17	51	64	1	0	33	1.02
310560--310630	31	2.3	30	83	9	81	66	1	0	32	1.01
310539--310637	51	2.0	47	81	11	110	65	2	0	32	1.04
311325--311350	5	5.2	5	100	0	52	0	38	0	61	0.96
311884--311929	14	3.4	13	82	8	56	47	2	2	47	1.26
311867--311940	27	2.8	26	79	6	85	47	5	5	41	1.49
315801--315836	2	18.0	2	100	0	72	0	50	0	50	1.00
320226--320258	13	2.4	14	90	5	50	0	12	0	87	0.53
320643--320679	3	12.3	3	100	0	74	32	0	0	67	0.91
323672--324053	129	3.0	128	93	3	630	34	11	23	30	1.90
331410--331449	2	21.0	2	85	10	57	50	2	0	47	1.14
332554--332609	29	1.9	29	82	7	69	57	1	5	35	1.32
333874--333899	10	2.6	10	100	0	52	42	15	7	34	1.75
333854--333879	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)
342082--342177	44	2.2	44	98	0	183	37	9	17	35	1.82
342522--342682	87	1.9	87	94	0	286	23	14	23	38	1.91
342974--343003	16	1.9	16	93	6	53	23	13	13	50	1.77
348434--348501	35	1.9	35	100	0	136	30	23	26	19	1.98
349414--349456	22	1.9	24	86	13	65	25	18	30	25	1.98
356487--356514	2	14.0	2	100	0	56	50	0	0	50	1.00
357537--357563	2	13.5	2	100	0	54	0	48	0	51	1.00
361558--361672	19	5.8	20	72	11	85	58	0	0	40	1.04
361561--361672	40	2.8	41	76	16	126	58	0	0	41	1.04
366410--366526	39	3.0	39	77	12	98	32	31	15	20	1.94
370819--371697	437	2.0	437	100	0	1758	31	18	16	33	1.93
372487--372524	6	6.3	6	90	0	58	15	5	0	78	0.91
377699--377731	2	16.5	2	100	0	66	48	0	51	0	1.00
377703--377761	10	5.7	10	79	18	50	40	1	47	10	1.47
378643--378705	27	2.2	29	83	5	76	42	0	0	57	0.99
378743--378781	2	20.0	2	94	5	71	48	0	51	0	1.00
379677--379748	33	2.2	31	76	9	72	50	0	0	50	1.00
382099--382161	21	2.9	22	80	4	74	58	0	0	41	0.98
388016--388054	2	19.5	2	100	0	78	48	0	0	51	1.00
404083--404111	2	14.5	2	100	0	58	48	0	0	51	1.00
404264--404311	19	2.4	19	86	6	60	47	0	0	52	1.00
404320--404364	10	4.3	10	78	10	54	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404324--404365	22	1.9	22	90	0	66	64	0	0	35	0.94
406011--406043	2	16.5	2	93	0	57	0	48	3	48	1.17
410002--410074	22	3.3	23	77	14	73	65	0	2	31	1.06
410002--410176	22	7.8	22	65	21	71	62	2	2	33	1.20
411435--411587	30	5.1	31	72	22	114	52	0	0	46	1.05
411532--411579	22	2.2	21	85	3	60	58	0	0	41	0.98
411532--411591	21	2.8	21	85	7	68	56	0	0	43	0.99
411980--412017	18	2.1	19	95	5	69	31	47	0	21	1.51
417229--417268	19	2.2	17	86	8	53	57	2	0	40	1.12
417289--417358	38	1.9	35	83	13	88	42	4	2	50	1.37
417889--417931	20	2.2	19	83	8	50	48	6	4	39	1.51
418473--418552	36	2.2	37	80	10	87	50	0	0	50	1.00
418533--418579	22	2.2	21	85	11	60	46	2	2	48	1.25
420578--420605	2	14.0	2	100	0	56	0	50	0	50	1.00
429622--429652	3	10.0	3	93	6	53	67	0	0	32	0.91
439924--439964	20	2.0	20	95	0	73	26	7	21	43	1.79
440345--440441	32	3.0	32	83	5	124	20	11	23	44	1.84
443031--443105	37	2.0	37	100	0	150	32	20	10	37	1.87
452502--452555	30	1.9	29	85	14	78	48	5	1	44	1.37
456548--456585	3	12.7	3	100	0	76	65	0	0	34	0.93
457969--458022	27	2.0	26	82	3	63	55	1	1	40	1.21
458233--458372	71	2.0	71	90	4	219	35	15	12	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458629--458658	2	15.0	2	100	0	60	50	0	0	50	1.00
469340--469427	16	5.6	16	75	16	76	34	1	3	61	1.20
469329--469427	32	3.1	32	80	10	121	33	2	4	60	1.27
469960--470001	11	3.5	11	84	15	57	40	0	4	54	1.21
469981--470031	20	2.4	22	78	15	63	49	0	0	50	1.00
471011--471070	12	4.3	13	78	18	59	35	0	0	65	0.93
473352--473380	2	14.5	2	100	0	58	51	0	0	48	1.00
475233--475273	20	2.0	20	85	0	55	21	0	4	73	1.02
483471--483523	26	2.0	26	96	0	97	28	28	16	26	1.97
489756--489780	2	12.5	2	100	0	50	52	0	0	48	1.00

Tables:   1   2   3   4