genome.fa.s440.2.7.7.80.10.50.1000.3.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: Scaffold440
Parameters: 2 7 7 80 10 50 1000
Length:  783396

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 683 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)
232695--232723	2	14.5	2	100	0	58	51	0	0	48	1.00
237919--237950	16	2.0	16	100	0	64	37	6	18	37	1.76
238431--238484	22	2.3	23	87	12	76	50	0	1	48	1.11
239312--239337	3	8.7	3	100	0	52	65	0	0	34	0.93
239333--239380	15	2.9	16	81	15	53	47	0	4	47	1.21
239971--240043	24	3.0	24	78	8	58	53	0	0	46	1.00
245373--245410	20	1.9	20	88	0	58	63	0	2	34	1.09
245772--245810	19	2.0	20	90	5	62	53	0	2	43	1.14
245801--245831	10	3.0	10	95	4	53	67	0	3	29	1.06
246157--246203	20	2.3	20	78	10	51	40	0	2	57	1.11
247166--247225	29	2.1	29	81	12	70	41	3	1	53	1.27
247299--247348	20	2.3	21	75	21	50	24	4	6	66	1.32
247707--247747	15	2.4	18	76	15	52	31	4	0	63	1.15
247888--247947	12	5.0	13	78	15	51	45	0	3	51	1.17
247919--247947	2	14.5	2	100	0	58	48	0	0	51	1.00
249922--249972	21	2.5	20	81	9	57	49	0	0	50	1.00
250687--250773	24	3.7	23	78	17	81	56	0	1	42	1.07
250704--250854	7	18.5	8	66	22	57	54	1	0	43	1.13
250707--250804	34	2.6	39	69	25	93	54	0	0	45	1.00
250725--250793	32	2.1	34	91	5	115	55	0	0	44	0.99
250807--250860	20	2.8	20	72	13	58	53	3	1	40	1.29
252812--252881	34	2.1	34	100	0	140	38	11	8	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
253336--253390	28	2.0	28	81	0	65	63	0	1	34	1.05
253565--253611	13	3.6	13	86	11	60	38	4	0	57	1.18
257867--257895	14	2.1	14	100	0	58	51	20	6	20	1.70
263313--263365	5	11.2	5	75	18	51	66	0	1	32	1.03
263313--263380	18	3.9	17	75	14	59	63	0	1	35	1.04
263254--263365	31	3.7	30	72	10	93	61	0	1	36	1.06
263249--263374	61	2.1	62	86	8	179	57	0	1	40	1.08
263617--263685	20	3.4	20	73	2	57	50	1	0	47	1.09
264260--264331	32	2.2	32	85	5	90	48	1	2	47	1.25
264776--264816	20	2.0	20	86	9	57	46	0	0	53	1.00
265022--265062	22	1.9	22	85	5	57	34	12	17	36	1.87
272388--272423	17	2.1	17	89	0	54	25	22	13	38	1.91
274660--274714	21	2.8	21	83	8	62	50	0	0	49	1.00
274686--274716	14	2.3	13	94	5	53	41	0	0	58	0.98
275082--275202	32	3.6	32	73	15	93	57	0	2	40	1.12
275092--275170	17	4.6	17	71	17	58	55	0	1	43	1.07
275557--275647	36	2.6	35	79	8	96	60	0	1	38	1.04
277337--277371	18	1.9	18	88	0	52	45	0	0	54	0.99
278058--278122	24	2.8	23	77	13	55	47	0	0	52	1.00
278103--278138	18	1.9	19	88	5	56	50	0	0	50	1.00
278215--278267	12	4.2	12	72	9	52	43	0	0	56	0.99
279133--279166	10	3.3	11	88	12	54	35	0	8	55	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
283676--283717	22	1.9	22	90	9	68	57	0	0	42	0.99
284893--284954	14	4.4	14	72	13	56	54	0	0	45	0.99
284893--284954	27	2.2	27	83	11	72	54	0	0	45	0.99
285163--285219	29	2.0	29	82	0	69	38	5	3	52	1.41
285547--285603	29	2.0	29	89	0	87	50	1	7	40	1.40
289739--289767	3	9.7	3	100	0	58	68	31	0	0	0.89
289766--289809	3	15.0	3	88	4	63	68	2	0	29	1.02
290488--290546	14	3.9	16	74	17	54	64	1	1	32	1.13
290495--290544	10	5.1	10	76	11	50	64	2	2	32	1.16
290488--290546	9	6.8	9	73	19	54	64	1	1	32	1.13
292460--292499	21	1.9	21	90	10	64	60	0	0	40	0.97
293362--293401	17	2.4	16	84	15	55	52	0	0	47	1.00
293426--293475	19	2.8	18	75	24	52	40	0	2	58	1.10
293512--293554	12	3.3	13	78	21	54	48	0	0	51	1.00
293942--294115	8	21.5	8	66	24	57	58	0	0	41	1.03
293972--294116	5	29.4	5	71	16	99	57	0	0	41	1.03
294009--294113	34	3.1	34	77	16	110	60	0	0	40	0.97
293939--294074	71	1.9	73	83	8	181	56	0	0	42	1.04
293939--294079	76	1.9	73	82	10	178	56	0	0	42	1.04
293823--294391	281	2.0	274	83	10	703	49	10	3	36	1.55
294263--294390	5	25.4	5	72	16	61	54	0	0	44	1.05
294313--294376	32	2.1	32	82	11	80	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294336--294392	17	3.4	17	78	7	64	63	0	0	36	0.95
294517--294626	23	4.5	23	67	22	64	24	2	3	69	1.18
294718--294764	25	1.9	25	86	4	69	57	0	2	40	1.11
294708--294765	11	5.0	11	80	12	62	58	0	1	39	1.08
294892--294927	18	1.9	19	94	5	65	61	0	0	38	0.96
295191--295256	33	2.0	33	100	0	132	48	0	0	51	1.00
295194--295264	33	2.2	33	92	0	115	52	0	0	47	1.00
295477--295501	3	8.3	3	100	0	50	0	36	0	64	0.94
295637--295663	6	4.5	6	100	0	54	0	14	0	85	0.61
311982--312017	11	3.3	11	85	14	56	69	0	0	30	0.89
311973--312044	23	3.3	22	75	15	78	63	0	0	36	0.94
312064--312126	25	2.7	23	75	18	65	57	1	0	41	1.08
312337--312371	13	2.6	13	90	4	52	62	0	0	37	0.95
312394--312438	23	2.0	23	90	0	72	37	0	0	62	0.96
312396--312448	23	2.2	23	83	6	61	41	0	0	58	0.98
312401--312459	25	2.3	25	77	8	66	40	0	0	59	0.97
312655--312687	2	16.5	2	100	0	66	48	0	0	51	1.00
312826--312905	19	4.6	19	75	17	84	50	0	1	48	1.08
312880--312935	21	2.7	21	78	13	62	39	0	0	60	0.97
312880--312953	20	3.6	21	80	10	73	33	0	1	64	1.02
316642--316682	21	2.0	21	90	0	64	60	0	0	39	0.96
317091--317271	98	1.8	98	89	0	281	50	7	2	39	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317512--317582	19	4.0	18	76	20	78	50	0	0	49	1.00
317530--317586	25	2.3	25	84	6	71	49	0	0	50	1.00
317512--317630	18	6.2	18	69	23	75	48	0	0	50	1.06
317617--317656	20	2.1	18	86	9	53	37	0	2	60	1.11
317666--317736	27	2.6	28	80	10	69	49	0	0	50	1.00
317911--317947	15	2.4	16	86	8	51	64	2	0	32	1.07
318137--318312	8	22.5	8	66	25	51	57	0	0	41	1.03
318167--318313	5	29.4	5	72	15	92	57	0	0	41	1.03
318156--318314	22	7.6	21	70	16	100	58	0	0	40	1.03
318231--318308	17	4.3	18	75	14	63	62	0	0	37	0.95
318211--318308	38	2.7	35	74	18	85	61	0	0	38	0.96
318214--318313	27	3.7	26	76	12	78	61	0	0	39	0.96
318134--318269	71	1.9	73	83	8	181	56	0	0	42	1.04
318463--318590	5	25.4	5	72	16	61	54	0	0	44	1.05
318018--318569	286	1.9	294	85	7	773	48	11	3	36	1.56
318018--318590	304	1.9	298	81	9	685	49	10	3	35	1.55
318513--318576	32	2.1	32	82	11	80	59	0	0	40	0.97
318536--318592	17	3.4	17	78	7	64	63	0	0	36	0.95
318718--318771	22	2.3	24	81	12	60	24	1	0	74	0.92
318917--318963	25	1.9	25	86	4	69	57	0	2	40	1.11
318907--318964	11	5.0	11	80	12	62	58	0	1	39	1.08
319091--319126	18	1.9	19	94	5	65	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
319390--319455	33	2.0	33	100	0	132	48	0	0	51	1.00
319378--319472	33	2.7	35	85	8	131	49	0	0	50	1.00
319675--319699	12	2.1	12	100	0	50	0	32	8	60	1.26
319837--319863	6	4.5	6	100	0	54	0	14	0	85	0.61
333757--333796	21	1.9	21	90	10	64	40	0	0	60	0.97
334188--334218	9	3.4	9	95	0	53	35	0	0	64	0.94
336013--336088	24	3.3	23	73	14	59	53	1	0	44	1.08
336058--336096	12	3.1	12	92	7	60	53	0	0	46	1.00
336238--336287	25	2.1	24	82	14	59	56	2	0	42	1.11
336495--336529	13	2.6	13	90	4	52	62	0	0	37	0.95

Tables:   1   2   3   4   5   6