genome.fa.s485.2.7.7.80.10.50.1000.4.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: Scaffold485
Parameters: 2 7 7 80 10 50 1000
Length:  999764

Tables:   1   2   3   4   5   6   7   8   

This is table  4  of  8  ( 928 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)
356632--356658	4	6.8	4	100	0	54	77	0	0	22	0.76
356703--356746	22	2.0	21	86	4	61	79	2	18	0	0.83
356979--357020	2	21.0	2	100	0	84	50	0	0	50	1.00
357658--357710	16	3.3	16	72	0	61	20	15	24	39	1.91
358399--358436	17	2.1	19	85	9	53	42	2	0	55	1.14
358756--358835	32	2.5	32	89	0	115	27	13	16	42	1.86
358756--358833	16	4.9	16	73	6	68	26	14	15	43	1.85
358756--358848	16	5.8	16	68	12	57	26	13	16	43	1.85
359681--359720	21	1.9	21	84	0	53	37	0	0	62	0.95
362033--362068	18	2.0	18	94	0	63	47	0	25	27	1.52
365382--365431	10	5.0	10	80	9	66	86	0	14	0	0.58
365386--365431	11	4.3	11	84	13	60	86	0	13	0	0.56
365386--365431	14	3.4	13	88	8	65	86	0	13	0	0.56
365380--365432	25	2.1	26	89	10	83	83	0	16	0	0.66
365940--365999	18	3.3	18	80	15	61	45	0	1	53	1.10
366861--366904	19	2.3	19	85	14	56	38	0	6	54	1.27
372413--372754	192	1.8	184	84	6	470	28	13	17	40	1.87
372779--372820	13	3.0	14	82	10	59	26	7	30	35	1.83
373472--373505	13	2.6	13	90	0	50	61	2	2	32	1.26
373931--374007	35	2.2	35	86	9	104	36	2	0	61	1.10
374173--374238	21	3.1	22	80	6	66	37	9	0	53	1.33
375181--375226	23	2.0	23	87	8	67	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)
375235--375290	22	2.5	22	83	11	78	55	0	5	39	1.23
375294--375365	37	2.1	37	85	14	102	61	0	0	38	0.96
375361--375419	30	2.0	30	86	0	82	59	5	0	35	1.20
385199--385224	4	6.5	4	100	0	52	23	0	0	76	0.78
385735--385768	18	2.0	18	88	11	54	61	0	5	32	1.20
385746--385827	36	2.3	36	83	6	112	59	1	1	37	1.13
385832--385862	16	1.9	16	93	0	53	67	0	0	32	0.91
386541--386571	2	15.5	2	100	0	62	51	0	0	48	1.00
386646--386689	2	21.5	2	86	13	63	50	2	2	45	1.27
387261--387287	2	13.5	2	100	0	54	48	0	0	51	1.00
387639--387742	32	3.3	31	79	9	122	50	4	4	40	1.45
388596--388633	18	2.1	19	85	5	51	57	0	0	42	0.98
389113--389156	23	2.0	22	90	4	70	43	0	0	56	0.99
389468--389527	29	2.2	27	85	8	77	48	1	0	50	1.11
389914--389984	18	4.4	17	67	20	53	49	0	0	50	1.00
389901--389982	29	2.8	29	74	7	67	48	1	0	50	1.08
392438--392470	3	11.0	3	100	0	66	66	0	0	33	0.92
392866--392895	11	2.7	11	94	0	51	66	10	0	23	1.21
393253--393287	6	5.8	6	100	0	70	48	0	0	51	1.00
393284--393315	6	5.3	6	92	0	55	53	0	0	46	1.00
393254--393315	12	5.2	12	86	13	60	51	0	0	48	1.00
393260--393315	18	3.1	18	82	14	55	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
394087--394141	6	9.5	6	90	7	78	36	0	12	50	1.41
394081--394153	12	6.2	12	84	7	69	36	0	13	49	1.43
394135--394159	4	6.2	4	100	0	50	24	0	24	52	1.48
396366--396407	19	2.3	19	87	4	59	66	2	4	26	1.23
396648--396679	2	16.5	2	93	6	57	50	0	0	50	1.00
396773--396835	16	4.0	16	78	13	60	34	1	0	63	1.04
396777--396989	104	2.0	104	96	0	390	44	3	0	52	1.17
396882--396939	16	3.6	16	75	13	57	37	0	0	62	0.96
396793--397013	104	2.1	103	89	3	327	43	4	0	51	1.23
397098--397157	16	3.8	16	70	16	52	68	0	0	31	0.90
397085--397159	34	2.2	34	83	11	91	64	0	1	34	1.02
397093--397168	27	2.7	28	76	10	75	64	0	0	35	0.94
397085--397201	31	3.6	32	72	14	89	63	0	0	35	1.01
397084--397213	62	2.1	59	81	8	145	63	0	0	35	1.00
399389--399429	16	2.8	14	85	10	55	34	0	0	65	0.93
402534--402582	13	3.6	14	81	10	57	57	2	0	40	1.10
404441--404466	11	2.4	11	100	0	52	50	0	0	50	1.00
405737--405779	20	2.2	19	91	4	68	32	0	0	67	0.91
405756--405797	13	3.0	14	75	10	50	33	0	0	66	0.92
407048--407087	9	4.6	9	82	17	57	65	2	0	32	1.06
407055--407092	18	2.2	17	95	4	67	65	5	0	28	1.14
407062--407106	18	2.5	18	82	17	58	64	4	0	31	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407294--407420	9	14.2	9	66	16	59	56	5	1	36	1.32
409292--409335	14	3.0	15	83	12	56	68	2	0	29	1.02
410061--410089	3	10.0	3	92	7	51	34	0	0	65	0.93
410116--410157	17	2.5	17	88	7	59	38	0	2	59	1.10
410873--410935	27	2.3	26	83	5	72	46	1	0	52	1.10
410889--410950	26	2.3	26	86	8	81	43	0	0	56	0.99
411114--411188	13	5.6	13	74	15	64	49	1	1	48	1.18
411111--411188	26	3.0	26	80	14	90	48	1	1	48	1.17
411142--411187	7	6.7	7	80	12	51	54	2	0	43	1.12
411148--411188	19	2.2	18	91	4	64	51	2	0	46	1.14
411748--411810	30	2.1	30	87	0	90	53	1	3	41	1.26
411831--411885	28	2.0	28	85	3	76	67	3	1	27	1.17
412681--412706	2	13.0	2	100	0	52	50	0	0	50	1.00
416248--416296	2	24.5	2	95	0	89	46	0	2	51	1.12
416674--416714	2	20.5	2	100	0	82	48	0	0	51	1.00
417853--417897	19	2.4	19	80	0	54	26	15	8	48	1.74
418085--418124	16	2.7	15	85	11	55	30	0	0	70	0.88
418348--418398	14	3.9	14	70	19	56	49	0	0	50	1.00
420825--420850	7	3.7	7	100	0	52	88	0	0	11	0.52
432344--432389	20	2.3	20	84	0	56	43	0	2	54	1.12
432437--432466	3	10.3	3	92	7	53	30	0	0	70	0.88
432742--432785	11	3.8	12	79	11	56	22	0	2	75	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432735--432785	11	4.5	11	74	13	50	23	0	3	72	1.01
437626--437652	14	1.9	14	100	0	54	51	25	0	22	1.48
438556--438595	21	1.9	21	84	0	53	47	0	0	52	1.00
440297--440336	21	1.9	21	84	0	53	32	0	0	67	0.91
440983--441016	4	8.0	4	96	3	50	70	0	0	29	0.87
440981--441024	12	3.5	13	82	17	58	68	0	0	31	0.90
442245--442335	30	3.1	29	82	6	112	57	1	5	36	1.29
443046--443108	21	3.2	21	65	21	64	26	12	4	55	1.57
445435--445485	20	2.4	22	81	15	63	41	0	1	56	1.10
446128--446210	12	6.8	12	72	13	53	54	0	1	44	1.08
446143--446204	12	5.0	13	74	18	60	56	0	0	43	0.99
446139--446204	24	2.7	25	83	4	91	56	0	0	43	0.99
453586--453656	37	1.9	37	100	0	142	47	11	4	36	1.59
453640--453668	2	14.5	2	100	0	58	51	0	0	48	1.00
455601--455625	2	12.5	2	100	0	50	52	0	0	48	1.00
457526--457570	24	2.0	22	86	8	63	55	17	11	15	1.68
458379--458425	19	2.5	18	80	10	58	34	4	2	59	1.29
466475--466515	19	2.1	19	86	9	55	58	0	0	41	0.98
466737--466769	16	2.0	17	94	5	59	36	0	0	63	0.95
467134--467186	24	2.2	24	86	6	72	39	0	0	60	0.97
467131--467200	24	3.3	22	74	16	58	44	0	0	55	0.99
468474--468511	20	1.9	20	100	0	76	36	21	15	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
469005--469038	13	2.6	13	85	0	50	61	2	2	32	1.26
471430--471472	6	7.2	6	91	0	59	37	2	11	48	1.52
471905--471963	13	3.9	15	80	15	52	50	0	0	49	1.00
472132--472210	5	15.4	5	82	12	54	48	0	0	51	1.00
472130--472210	10	7.8	10	76	12	65	48	0	0	51	1.00
472130--472214	15	5.5	15	72	19	68	48	0	0	51	1.00
472426--472489	28	2.3	26	72	12	65	48	0	0	51	1.00
472748--472787	20	2.0	20	90	9	64	62	0	0	37	0.95
473062--473109	22	2.2	22	84	0	60	37	2	0	60	1.09
473218--473281	28	2.2	28	83	8	76	43	0	3	53	1.16

Tables:   1   2   3   4   5   6   7   8