genome.fa.s400.2.7.7.80.10.50.1000.3.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: Scaffold400
Parameters: 2 7 7 80 10 50 1000
Length:  2847997

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  3  of  17  ( 1977 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)
291342--291417	24	3.0	26	73	13	68	52	0	0	47	1.00
293381--293424	23	2.0	23	95	4	81	40	0	0	59	0.98
293699--293755	28	2.0	29	82	3	71	54	0	0	45	0.99
294359--294423	6	10.7	6	75	8	60	47	3	1	47	1.27
294846--294903	25	2.4	24	75	11	57	56	1	3	37	1.26
294892--294940	18	2.7	18	78	9	55	67	2	0	30	1.02
297117--297169	19	2.7	20	85	8	65	39	0	0	60	0.97
297118--297181	20	3.2	20	84	8	69	40	0	0	59	0.97
297134--297198	22	3.3	20	81	10	64	36	0	1	61	1.05
297144--297198	20	3.0	20	84	10	64	38	0	1	60	1.08
297188--297243	29	2.0	28	93	6	96	57	0	0	42	0.99
297188--297259	29	2.6	29	86	4	85	51	0	0	48	1.00
297445--297485	19	2.2	19	100	0	82	36	0	4	58	1.20
298313--298395	32	2.6	31	79	12	80	49	1	2	46	1.22
298374--298435	28	2.2	29	85	2	81	56	0	8	35	1.29
299128--299165	19	2.1	19	90	5	60	26	2	7	63	1.35
299540--299573	10	3.4	10	91	0	59	41	0	0	58	0.98
299876--299916	22	1.9	22	95	5	75	51	0	2	46	1.14
301886--302079	99	2.0	99	91	2	318	34	8	18	38	1.82
305993--306027	3	11.7	3	100	0	70	0	0	31	68	0.90
309423--309624	78	2.6	79	82	3	228	29	16	29	24	1.97
309580--309647	28	2.4	28	87	0	91	25	19	32	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309636--309969	52	6.3	52	68	17	188	32	12	25	29	1.92
309792--309860	27	2.5	27	88	6	95	23	21	30	24	1.99
309522--309914	107	3.7	105	73	11	332	31	14	26	27	1.95
309569--309974	212	1.9	212	89	3	629	31	13	26	28	1.94
309851--309969	51	2.3	53	84	7	145	33	10	22	32	1.89
312337--312362	13	2.0	13	100	0	52	38	15	15	30	1.88
312316--312382	33	2.0	33	88	0	98	43	16	14	25	1.86
312493--312549	21	2.7	21	97	0	105	36	19	10	33	1.86
313164--314336	55	21.3	54	91	4	1720	20	20	30	28	1.98
313324--313406	27	3.0	27	63	16	62	21	16	31	30	1.96
313900--313988	29	3.2	29	67	20	89	19	19	33	28	1.96
315318--315360	11	3.8	11	87	6	59	0	4	6	88	0.63
315318--315362	23	2.0	23	86	0	63	0	4	8	86	0.69
327781--327982	78	2.6	79	80	3	219	30	16	28	24	1.96
327938--328010	28	2.6	28	86	4	94	24	17	31	26	1.97
327994--328327	52	6.3	52	68	17	188	32	12	25	29	1.92
328150--328218	27	2.5	27	88	6	95	23	21	30	24	1.99
327880--328272	107	3.7	105	72	11	323	31	14	26	27	1.95
327927--328332	212	1.9	212	88	3	620	31	13	26	28	1.94
328209--328327	51	2.3	53	84	7	145	33	10	22	32	1.89
330690--330715	13	2.0	13	100	0	52	38	15	15	30	1.88
330669--330735	33	2.0	33	88	0	98	43	16	14	25	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330777--330814	13	2.9	13	100	0	76	31	15	15	36	1.90
330872--330928	21	2.7	21	97	0	105	36	19	10	33	1.86
330940--330967	14	2.0	14	100	0	56	14	7	0	78	0.95
334194--334368	90	2.0	88	84	4	226	24	13	10	52	1.71
336147--336171	12	2.1	12	100	0	50	24	16	16	44	1.86
344495--344573	27	2.9	27	88	1	113	21	8	22	46	1.79
344500--344585	28	3.1	26	79	11	91	20	8	22	48	1.75
345252--345281	2	15.0	2	100	0	60	50	0	0	50	1.00
345575--345615	3	13.7	3	100	0	82	65	0	0	34	0.93
345768--345792	4	6.2	4	100	0	50	24	0	0	76	0.80
347003--347038	2	18.0	2	100	0	72	50	0	0	50	1.00
347966--348008	22	1.9	23	85	4	61	30	9	9	51	1.65
348270--348300	2	15.5	2	93	0	53	48	0	3	48	1.17
348593--348634	16	2.5	17	78	17	52	33	0	0	66	0.92
348600--348634	16	2.2	16	90	10	54	37	0	0	62	0.95
349588--349617	7	4.1	7	95	4	51	83	0	0	16	0.65
352322--352450	23	5.8	23	67	18	60	42	2	1	53	1.23
352318--352417	9	11.3	9	68	21	61	41	2	1	56	1.18
352376--352438	33	1.9	33	83	6	83	47	0	1	50	1.10
353280--353324	23	2.0	23	100	0	90	8	13	4	73	1.23
353280--353337	23	2.5	23	88	5	73	10	12	5	72	1.26
360336--360385	22	2.3	22	96	0	91	30	8	28	34	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
360374--360426	25	2.1	25	85	0	70	26	18	33	20	1.96
360460--360498	5	8.0	5	82	5	53	43	0	0	56	0.99
360461--360499	10	4.0	10	90	3	62	46	0	0	53	1.00
360460--360498	20	2.0	19	95	5	69	43	0	0	56	0.99
360693--360728	16	2.3	15	86	9	54	47	0	0	52	1.00
361053--361103	3	17.0	3	100	0	102	66	0	0	33	0.92
361161--361187	13	2.1	13	100	0	54	77	0	0	22	0.76
361858--361914	29	2.0	29	83	13	73	40	1	7	50	1.40
361881--361929	24	2.1	22	85	14	64	36	2	8	53	1.43
362247--362280	2	17.0	2	100	0	68	50	0	0	50	1.00
363021--363071	20	2.5	20	87	6	68	39	17	15	27	1.90
363143--363168	13	2.0	13	100	0	52	38	15	15	30	1.88
363125--363188	33	2.0	33	87	3	94	40	18	14	26	1.89
363222--363261	20	2.0	20	95	4	73	40	15	10	35	1.80
369345--369383	13	3.0	13	96	0	69	30	17	15	35	1.91
371169--371284	37	3.1	37	63	18	96	39	6	20	33	1.77
371163--371311	74	2.0	74	100	0	298	42	6	18	32	1.77
371855--371905	20	2.5	20	87	6	68	39	17	15	27	1.90
371977--372002	13	2.0	13	100	0	52	38	15	15	30	1.88
371959--372022	33	2.0	33	87	3	94	40	18	14	26	1.89
372056--372095	20	2.0	20	95	4	73	40	15	10	35	1.80
373075--373132	30	2.0	30	83	10	75	44	0	6	48	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373174--373217	19	2.3	19	88	0	61	25	2	0	72	0.96
374662--374707	17	2.8	16	80	6	56	78	0	19	2	0.86
374661--374709	20	2.4	20	82	3	62	79	0	18	2	0.83
374704--374801	48	2.0	48	98	0	187	36	19	24	19	1.95
375096--375134	20	1.9	21	89	5	62	12	5	5	76	1.11
380586--380631	20	2.3	20	88	0	65	67	0	2	30	1.03
380610--380667	24	2.4	24	75	11	64	67	3	0	29	1.07
380999--381055	3	19.0	3	88	0	87	61	0	5	33	1.18
389281--389396	46	2.5	46	83	2	144	29	9	18	42	1.82
395629--395659	13	2.4	13	94	0	53	32	6	61	0	1.21
400233--400309	24	3.1	24	79	9	75	46	25	7	19	1.76
401596--401659	19	3.2	20	77	16	62	42	4	0	53	1.22
404802--404828	12	2.2	12	100	0	54	55	14	0	29	1.40
404955--405117	50	3.3	50	88	1	256	42	14	26	15	1.86
405566--405625	32	1.9	31	86	10	86	66	5	25	3	1.27
405633--405727	47	2.1	43	82	7	109	40	36	15	7	1.76
405665--405764	43	2.5	39	84	12	116	35	39	19	7	1.78
405694--405764	18	3.9	18	77	14	74	33	38	21	7	1.80
406693--406813	53	2.3	50	82	13	147	28	23	14	33	1.93
406750--407135	79	4.9	79	94	0	628	27	24	14	33	1.94
407067--407214	53	2.9	50	80	10	172	27	22	12	37	1.91
413286--413557	60	4.5	60	93	3	449	25	28	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413286--413546	121	2.2	120	94	2	452	26	27	19	25	1.99
413566--414014	62	7.3	61	86	6	570	25	29	20	24	1.99
413558--414014	122	3.7	124	85	6	583	24	29	20	24	1.99
414708--414734	12	2.2	12	100	0	54	55	14	0	29	1.40
414860--415022	50	3.3	50	88	1	256	42	14	26	15	1.86
415263--415294	6	5.2	6	92	7	55	50	34	15	0	1.45
415541--415635	47	2.1	43	82	7	109	40	36	15	7	1.76
415573--415672	43	2.5	39	84	12	116	35	39	19	7	1.78
415602--415672	18	3.9	18	77	14	74	33	38	21	7	1.80
416600--416720	53	2.3	50	82	13	147	28	23	14	33	1.93

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17