genome.fa.s229.2.7.7.80.10.50.1000.3.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: Scaffold229
Parameters: 2 7 7 80 10 50 1000
Length:  643502

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 535 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)
251007--251040	17	1.9	17	88	5	50	47	2	0	50	1.16
255355--255417	29	2.2	29	80	11	76	66	1	4	26	1.20
257874--257898	12	2.1	12	100	0	50	24	0	8	68	1.16
257862--257896	18	2.0	17	88	5	52	25	0	2	71	1.00
258339--258378	18	2.2	19	86	4	55	22	0	5	72	1.04
258339--258389	21	2.7	18	75	21	50	21	0	3	74	0.98
261353--261407	17	3.3	17	73	21	62	60	0	3	36	1.15
261345--261408	24	2.7	26	75	22	68	57	0	3	39	1.14
261823--261849	4	6.8	4	100	0	54	22	0	0	77	0.76
262628--262671	17	2.5	17	81	3	52	72	2	13	11	1.21
268536--269082	28	18.3	28	73	14	339	23	16	32	27	1.96
270828--270890	1	63.0	1	77	0	63	0	3	7	88	0.60
270831--270890	25	2.4	25	86	8	79	0	3	8	88	0.62
270818--270889	10	6.6	10	81	15	81	1	4	8	86	0.76
284883--284957	20	3.8	20	76	3	71	41	12	12	34	1.79
284880--284957	40	2.0	39	84	2	102	41	12	11	34	1.80
286181--286206	3	8.7	3	100	0	52	34	0	34	30	1.58
286464--286507	17	2.6	17	82	3	54	31	20	6	40	1.79
288109--288141	2	16.5	2	100	0	66	51	0	0	48	1.00
291249--291281	16	2.1	16	88	5	50	12	3	3	81	0.91
296255--296298	8	5.0	9	88	5	56	0	11	0	88	0.51
297253--297277	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301826--301852	10	2.7	10	100	0	54	51	0	0	48	1.00
302215--302263	14	3.6	14	81	5	57	22	2	0	75	0.90
302202--302268	15	4.9	14	75	14	50	29	1	0	68	0.98
302229--302277	22	2.2	22	78	7	55	30	0	2	67	1.02
304218--304292	20	3.8	20	76	0	87	34	13	10	41	1.79
304218--304295	40	2.0	39	87	2	111	34	12	11	41	1.80
305239--305307	22	3.1	22	87	6	68	26	17	13	43	1.85
307561--307593	16	2.1	16	94	0	57	72	3	0	24	0.98
307832--307886	20	2.7	21	76	20	55	40	1	1	56	1.21
307836--307879	22	2.0	22	86	0	61	40	2	2	54	1.25
309926--309976	24	2.2	23	82	3	57	58	0	0	41	0.98
309935--309994	30	2.0	31	87	9	88	53	0	1	45	1.10
310668--310716	19	2.7	19	84	6	66	51	0	6	42	1.27
310837--310885	25	2.0	24	84	4	62	48	4	2	44	1.33
312482--312532	6	8.8	6	75	16	54	60	0	0	39	0.97
312451--312536	29	2.9	29	83	13	88	59	2	0	38	1.10
312482--312532	11	5.0	11	77	22	58	60	0	0	39	0.97
312492--312540	14	3.4	15	72	16	50	59	0	0	40	0.98
312475--312537	19	3.3	18	79	18	65	60	1	0	38	1.07
312482--312564	29	3.0	27	80	16	89	57	1	0	40	1.06
313543--313602	23	2.7	23	86	2	77	46	1	1	50	1.21
315612--315747	33	4.1	33	90	0	209	35	12	16	36	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
321806--321835	2	15.0	2	92	0	51	46	3	0	50	1.18
321835--321863	2	14.5	2	100	0	58	0	0	48	51	1.00
324398--324461	30	2.1	30	88	0	92	34	7	9	48	1.64
324804--324852	17	2.9	17	80	19	59	61	0	0	38	0.96
325411--325451	19	2.1	20	86	13	59	39	9	4	46	1.58
325424--325462	20	2.0	20	85	10	53	41	7	5	46	1.55
326098--326150	22	2.3	24	77	9	65	22	11	5	60	1.52
326256--326314	29	2.0	31	86	6	86	62	0	0	37	0.95
327028--327086	13	4.2	14	76	10	59	32	0	1	66	1.02
327153--327194	19	2.2	19	87	8	59	40	0	2	57	1.12
327510--327547	2	18.5	2	94	5	67	47	2	0	50	1.15
329116--329140	2	12.5	2	100	0	50	48	0	0	52	1.00
331267--331300	2	17.0	2	93	0	59	0	2	50	47	1.16
333539--333579	18	2.3	18	100	0	82	41	4	26	26	1.76
335574--335629	8	7.6	8	73	16	50	33	0	0	66	0.92
335539--335615	29	3.0	26	75	24	67	42	0	0	57	0.99
335573--335639	22	3.2	21	80	18	77	35	0	0	64	0.94
335679--335738	31	1.9	31	89	0	93	55	10	1	33	1.43
336836--336885	25	2.0	25	84	11	66	52	0	0	48	1.00
339314--339357	21	2.1	21	95	0	79	34	0	9	56	1.31
341781--341810	13	2.3	13	100	0	60	36	13	16	33	1.88
341763--341827	33	2.0	33	85	11	89	36	18	13	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341857--341902	20	2.3	20	85	7	58	41	10	15	32	1.82
342799--342865	33	2.0	33	88	0	98	26	16	31	25	1.96
348224--348286	32	1.9	32	87	6	90	39	15	14	30	1.87
354175--354213	13	3.0	13	88	0	60	30	20	12	35	1.90
354255--354317	27	2.3	27	83	0	72	23	12	38	25	1.90
356584--356640	20	2.8	20	89	0	87	42	8	17	31	1.80
356606--356702	51	1.9	51	89	0	149	44	9	15	30	1.78
356535--356692	71	2.2	72	88	1	228	41	10	17	30	1.83
358596--358649	22	2.5	22	79	8	58	42	9	7	40	1.65
362901--362979	20	4.0	20	71	11	63	35	2	7	54	1.42
362906--363002	21	4.8	21	75	7	67	36	3	6	54	1.41
362957--363017	32	1.9	31	90	3	95	39	3	3	54	1.33
365213--365318	44	2.4	43	87	4	142	21	21	14	42	1.88
370206--370259	15	3.2	17	74	12	58	51	0	0	48	1.00
373950--373980	2	15.5	2	100	0	62	51	0	48	0	1.00
374272--374411	36	3.8	36	79	6	138	24	28	20	26	1.99
374326--374426	36	2.8	36	89	0	139	24	26	20	27	1.99
375893--375954	31	2.0	31	90	6	99	35	6	14	43	1.71
379391--379458	31	2.2	31	89	0	100	44	10	19	26	1.82
379634--379680	17	2.9	16	84	9	51	65	2	0	31	1.04
380009--380073	26	2.5	26	80	7	69	47	1	1	49	1.20
380516--380564	15	3.0	17	80	11	50	36	6	6	51	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380750--380808	31	1.9	31	85	0	82	40	11	5	42	1.64
380884--380938	20	2.7	22	81	10	64	21	0	10	67	1.21
381796--381830	18	2.0	18	94	5	63	22	0	0	77	0.78
384752--384786	17	2.1	17	89	10	54	71	0	0	28	0.86
387806--387839	2	17.0	2	100	0	68	50	0	0	50	1.00
389035--389092	8	7.0	9	75	16	63	56	3	0	39	1.16
389036--389092	17	3.4	18	77	15	61	57	3	0	38	1.16
389103--389158	27	2.1	27	89	0	85	42	3	0	53	1.18
391961--392005	2	23.5	2	91	8	76	53	0	0	46	1.00
396976--397025	26	1.9	25	88	8	73	62	6	2	30	1.31
401443--401508	26	2.5	25	75	18	62	54	0	1	43	1.09
402437--402469	16	2.0	17	88	5	50	42	3	0	54	1.15
411235--411325	38	2.3	39	82	14	107	40	0	0	59	0.97
411251--411334	23	3.6	24	73	10	77	38	0	0	61	0.96
411610--411746	39	3.8	38	75	17	123	60	0	1	37	1.06
411699--411734	13	2.8	14	88	12	51	52	0	0	47	1.00
411680--411741	32	2.0	31	87	3	88	58	0	1	40	1.08
411598--411744	59	2.4	60	74	17	144	59	0	2	38	1.09
411711--411753	21	2.1	20	83	12	52	53	0	0	46	1.00
411865--411968	36	2.8	37	78	14	99	37	0	1	60	1.08
411929--411988	31	2.0	30	83	9	77	38	0	0	61	0.96
411911--411992	23	3.6	23	74	9	78	39	0	0	60	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412282--412358	31	2.5	31	78	16	79	62	0	1	36	1.04
412281--412376	43	2.4	40	83	10	117	60	0	1	38	1.04
412282--412409	21	6.3	21	73	20	78	57	0	0	41	1.04
412283--412387	13	7.7	14	68	21	55	58	0	0	40	1.05
412349--412464	33	3.5	33	78	9	121	54	0	0	43	1.12
412349--412502	66	2.4	65	76	11	145	51	1	0	46	1.17
413232--413288	24	2.3	26	85	11	75	59	1	3	35	1.25
413647--413678	2	16.0	2	100	0	64	50	0	0	50	1.00
414273--414308	18	2.1	17	89	5	54	50	8	0	41	1.33
414368--414415	24	1.9	25	87	8	71	47	0	0	52	1.00

Tables:   1   2   3   4   5