genome.fa.s401.2.7.7.80.10.50.1000.3.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: Scaffold401
Parameters: 2 7 7 80 10 50 1000
Length:  1910012

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1464 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)
250788--250859	11	6.9	11	71	20	57	62	0	2	34	1.10
250822--250897	32	2.3	32	78	10	82	55	2	2	39	1.28
251654--251712	26	2.4	24	86	8	75	66	5	0	28	1.13
255221--255277	28	2.0	28	93	0	96	26	19	8	45	1.79
257474--257541	2	34.0	2	87	0	100	44	0	5	50	1.26
257474--257541	30	2.3	30	100	0	136	44	0	5	50	1.26
257702--257772	35	2.0	35	100	0	142	28	32	5	33	1.80
261760--261785	9	2.9	9	100	0	52	34	23	23	19	1.96
269814--269866	17	3.1	17	79	17	65	62	0	0	37	0.96
271056--271095	20	2.0	20	85	0	53	57	7	2	32	1.40
272051--272095	18	2.5	19	82	10	58	51	0	0	48	1.00
272340--272378	21	1.9	20	89	5	60	35	2	0	61	1.10
272365--272512	67	2.2	67	87	3	208	42	0	4	52	1.27
272515--272559	25	1.9	25	86	13	69	26	2	6	64	1.30
272629--272678	23	2.2	23	82	7	57	24	6	10	60	1.51
273000--273048	23	2.1	23	88	0	71	26	4	2	67	1.19
275909--275956	21	2.3	22	78	10	55	79	8	10	2	1.02
275922--275955	17	1.9	18	88	5	52	82	0	14	2	0.79
280353--280383	16	1.9	16	100	0	62	90	0	9	0	0.46
284797--284828	12	2.7	12	90	0	55	56	0	43	0	0.99
286209--286268	27	2.3	25	85	8	75	63	5	3	28	1.31
286197--286268	25	2.8	26	82	12	78	59	5	4	30	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
288040--288067	2	14.0	2	100	0	56	50	0	0	50	1.00
288558--288649	27	3.3	27	67	16	80	40	5	5	48	1.49
288572--288660	27	3.1	30	66	18	80	37	6	6	49	1.56
288548--288658	56	2.0	56	98	0	213	37	6	6	49	1.54
289723--289754	3	10.7	3	93	0	55	62	0	0	37	0.95
290040--290076	2	18.5	2	100	0	74	48	0	0	51	1.00
291368--291400	2	16.5	2	100	0	66	48	0	51	0	1.00
291455--291519	24	2.8	24	83	2	78	50	0	1	47	1.10
291518--291570	23	2.4	22	80	20	58	33	0	1	64	1.05
292805--292840	18	2.0	18	89	10	56	44	2	0	52	1.15
292907--292942	15	2.3	15	90	4	54	61	0	0	38	0.96
292905--292959	16	3.4	16	85	7	67	60	0	0	40	0.97
293362--293400	2	19.5	2	94	0	69	48	0	0	51	1.00
295276--295328	18	3.2	18	77	17	53	60	0	0	39	0.97
295275--295343	17	4.2	17	75	18	65	56	1	0	42	1.08
301704--301760	3	19.7	3	85	7	82	73	0	0	26	0.83
301704--301751	17	2.8	17	96	0	87	72	0	0	27	0.84
301704--301757	20	2.7	19	88	8	81	74	0	0	25	0.83
301703--301764	17	3.6	17	89	4	72	75	0	0	24	0.80
306157--306225	11	6.4	11	73	15	54	57	0	0	42	0.98
306157--306248	32	3.0	30	79	16	100	58	1	0	40	1.05
312763--312825	10	5.8	12	70	22	50	65	3	0	31	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
312764--312837	22	3.8	19	73	25	57	66	2	0	31	1.06
313496--313583	24	4.0	22	72	20	60	38	0	0	61	0.96
313505--313539	17	2.1	16	89	5	52	31	0	0	68	0.90
314084--314161	38	2.0	40	85	7	108	47	0	0	52	1.00
314131--314164	18	2.0	17	88	11	52	55	0	0	44	0.99
314112--314201	44	2.0	45	82	6	112	48	1	1	48	1.15
315165--315231	23	2.9	23	78	12	66	46	7	8	37	1.64
317267--317310	19	2.2	20	88	4	63	29	0	0	70	0.88
317480--317514	5	7.2	5	87	6	54	80	0	20	0	0.72
318337--318397	26	2.4	27	76	13	67	50	0	0	49	1.00
318364--318423	29	2.0	30	87	3	86	51	0	0	48	1.00
319036--319083	11	4.7	10	82	14	53	35	0	2	62	1.07
319036--319084	21	2.4	21	86	3	64	34	0	2	63	1.06
319042--319107	28	2.3	30	78	5	73	37	0	3	59	1.13
321568--321633	23	2.6	24	79	13	71	50	0	0	50	1.00
322495--322541	19	2.6	18	83	12	53	46	0	2	51	1.13
323006--323062	25	2.2	27	84	6	73	47	0	0	52	1.00
323010--323067	21	2.8	21	79	10	66	48	0	0	51	1.00
329183--329210	2	14.0	2	100	0	56	50	0	0	50	1.00
335886--336007	60	2.0	60	88	0	181	42	13	7	36	1.72
336330--336369	17	2.4	17	82	0	53	60	0	7	32	1.25
338455--338749	147	2.0	148	93	0	502	28	22	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344839--344916	14	6.2	14	68	22	50	47	0	3	48	1.20
344837--344901	27	2.6	24	79	18	71	49	0	4	46	1.22
344872--344935	19	3.4	19	76	12	60	40	1	3	54	1.25
345342--345392	22	2.4	21	81	15	61	52	0	0	47	1.00
345412--345445	17	2.0	17	94	0	59	38	0	5	55	1.24
345504--345572	27	2.7	26	75	16	72	57	1	4	36	1.27
345484--345579	11	9.1	11	69	12	58	58	1	5	35	1.27
346133--346215	39	2.2	36	83	8	103	69	3	2	24	1.16
346168--346215	24	2.0	24	92	4	80	75	0	0	25	0.81
346357--346417	32	1.9	32	83	6	79	63	1	1	32	1.13
352842--352898	30	1.9	29	82	10	71	45	3	8	42	1.52
353026--353058	16	2.1	16	88	11	50	27	0	0	72	0.85
355447--355472	13	2.0	13	100	0	52	7	23	15	53	1.67
357459--357485	2	13.5	2	100	0	54	0	48	0	51	1.00
359948--360006	26	2.3	26	83	16	70	37	1	1	59	1.18
362647--362687	16	2.4	18	84	12	59	73	0	0	26	0.84
363597--363662	24	2.8	24	82	11	66	68	0	1	30	0.99
364961--365038	29	2.8	29	73	22	69	47	1	0	51	1.09
365670--365713	18	2.4	19	84	3	54	29	0	2	68	1.02
365760--365806	18	2.6	18	80	16	53	63	0	0	36	0.94
365746--365804	32	1.9	32	86	6	86	62	3	0	33	1.12
369168--369230	23	2.7	23	76	11	65	42	0	0	57	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370075--370120	23	2.0	23	95	0	83	45	0	6	47	1.28
370861--370921	12	4.8	12	71	11	50	52	1	0	45	1.10
370861--370921	26	2.4	25	76	15	63	52	1	0	45	1.10
371094--371163	24	2.8	25	76	4	70	41	0	1	57	1.08
371144--371176	16	2.1	16	94	5	59	27	0	0	72	0.85
372118--372162	23	2.0	23	82	8	56	44	0	0	55	0.99
373139--373194	22	2.7	20	81	13	67	55	0	0	44	0.99
373148--373178	14	2.3	14	94	5	55	58	0	0	41	0.98
373235--373299	21	2.9	21	84	9	67	52	1	1	44	1.19
373727--373760	18	1.9	18	88	5	52	35	2	2	58	1.28
382454--382528	15	4.4	18	75	17	52	45	1	0	53	1.08
382468--382548	8	10.0	8	76	15	51	45	0	0	54	0.99
382462--382523	31	2.0	31	81	12	74	48	1	0	50	1.10
382470--382514	15	2.9	15	78	15	56	48	0	0	51	1.00
382488--382562	23	3.2	23	78	14	82	42	1	0	56	1.08
382468--382547	18	4.4	18	70	22	60	45	0	0	55	0.99
382468--382556	18	4.9	18	67	20	51	44	0	0	55	0.99
382961--382990	12	2.5	12	100	0	60	36	0	6	56	1.26
387887--387916	2	15.0	2	100	0	60	50	0	0	50	1.00
389608--389632	2	12.5	2	100	0	50	48	0	0	52	1.00
393001--393025	4	6.2	4	100	0	50	52	24	0	24	1.48
393219--393243	13	1.9	13	100	0	50	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393950--394027	41	1.9	41	84	5	104	55	1	2	41	1.22
394475--394529	24	2.3	23	78	12	65	63	0	3	32	1.12
394785--394835	22	2.3	22	87	9	77	52	3	1	41	1.31
395558--395588	2	15.5	2	100	0	62	51	0	0	48	1.00
395576--396028	241	1.9	240	94	0	798	45	4	10	39	1.59
396417--396478	28	2.1	30	88	5	92	54	4	1	38	1.31
397450--397480	14	2.2	14	94	0	53	54	3	0	41	1.16
397565--397591	2	13.5	2	100	0	54	48	0	0	51	1.00
398176--398216	2	20.5	2	89	0	64	46	0	2	51	1.14
398605--398669	30	2.1	31	83	8	80	41	1	0	56	1.08

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13