genome.fa.s355.2.7.7.80.10.50.1000.3.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: Scaffold355
Parameters: 2 7 7 80 10 50 1000
Length:  530098

Tables:   1   2   3   4   

This is table  3  of  4  ( 438 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)
289626--289677	20	2.7	20	90	3	79	38	21	11	28	1.88
295810--295848	13	3.0	13	92	0	69	30	15	20	33	1.94
296195--296663	230	2.0	230	100	0	938	31	32	17	19	1.95
298529--298559	13	2.4	13	94	0	53	35	16	12	35	1.87
298641--298725	20	4.7	20	76	20	87	37	20	11	30	1.88
298680--298705	13	2.0	13	100	0	52	30	15	15	38	1.88
298660--298727	33	2.1	33	97	0	127	35	19	13	32	1.90
314115--314188	38	1.9	38	97	0	139	29	6	21	41	1.79
314664--314703	13	3.1	13	88	0	62	30	15	15	40	1.87
314688--314744	19	3.0	18	87	10	78	35	15	17	31	1.92
314691--314743	20	2.7	20	88	8	74	33	15	18	32	1.92
314772--314825	20	2.7	20	88	5	74	33	11	18	37	1.86
316634--316767	65	2.1	65	95	0	241	34	11	10	43	1.76
322135--322159	13	1.9	13	100	0	50	36	16	16	32	1.90
322150--322200	20	2.6	20	87	3	68	33	15	15	35	1.90
322144--322200	19	3.0	20	79	7	73	35	15	15	33	1.90
322245--322287	13	3.3	13	90	0	68	37	13	13	34	1.85
322229--322308	20	3.7	21	78	18	83	33	12	17	36	1.87
326658--326690	4	8.5	4	93	6	59	24	0	0	75	0.80
328595--328628	14	2.4	14	90	0	50	20	5	5	67	1.33
329508--329592	20	4.1	21	73	23	65	51	0	0	48	1.00
329589--329618	7	4.4	7	91	8	53	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329589--329616	13	2.2	13	100	0	56	14	0	0	85	0.59
332380--332420	2	20.5	2	100	0	82	48	0	0	51	1.00
335958--336003	22	2.0	23	87	4	67	60	0	4	34	1.16
341700--341760	31	2.0	31	83	6	79	60	1	0	37	1.07
341686--341813	45	2.7	45	74	14	116	62	0	0	36	1.01
341689--341817	36	3.4	38	76	15	117	62	0	0	37	1.01
342415--342473	28	2.1	28	93	0	100	35	0	8	55	1.30
342942--342976	2	17.5	2	100	0	70	48	0	0	51	1.00
343826--343905	15	4.5	17	70	23	51	27	1	5	66	1.20
347831--347882	27	1.9	27	84	7	70	21	1	9	67	1.29
348012--348095	32	2.6	32	80	12	93	35	1	3	59	1.22
352877--352932	15	3.7	15	72	11	51	58	0	0	41	0.98
352855--352913	21	2.8	21	78	17	61	52	1	0	45	1.10
352932--352996	33	2.0	34	82	14	84	36	3	0	60	1.13
353205--353254	16	3.2	16	77	5	57	48	0	0	52	1.00
354218--354268	26	2.0	26	84	0	66	35	5	7	50	1.55
355708--355745	19	2.0	19	100	0	76	47	5	15	31	1.68
356485--356514	2	15.5	2	93	6	53	50	0	0	50	1.00
356727--356776	16	3.3	15	75	16	50	48	2	2	48	1.24
357662--357717	10	5.5	10	75	10	51	1	12	3	82	0.88
357662--357707	22	2.1	21	84	4	56	2	13	2	82	0.85
358273--358310	2	19.0	2	94	0	67	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367304--367509	78	2.6	78	82	2	234	29	16	29	24	1.97
367461--367532	28	2.6	28	86	0	90	25	19	33	22	1.97
367612--367741	51	2.5	52	81	1	154	35	14	23	26	1.93
367410--367910	263	1.9	263	88	4	751	32	13	25	28	1.94
367724--367796	27	2.6	28	80	8	87	23	21	31	23	1.98
367787--367913	51	2.4	51	82	10	157	33	11	25	29	1.91
367555--367905	52	6.7	51	68	14	178	33	12	24	29	1.92
370324--370423	19	5.9	18	73	26	103	38	15	12	35	1.84
370346--370402	13	3.9	13	76	24	60	35	15	14	35	1.88
370327--370421	32	3.0	32	98	0	181	36	15	12	34	1.86
370479--370535	21	2.7	21	94	0	96	35	19	10	35	1.86
370542--370588	7	5.9	8	80	14	53	14	0	0	85	0.61
370539--370590	17	3.0	17	86	8	70	15	0	0	84	0.62
370539--370587	24	2.0	25	92	4	82	16	0	0	83	0.64
370543--370569	7	3.9	7	100	0	54	11	0	0	88	0.50
371311--372119	55	14.4	54	89	5	882	23	19	28	28	1.98
371311--372086	110	6.9	110	90	4	1048	22	19	28	28	1.98
371331--372087	274	2.7	273	86	7	1006	22	19	28	28	1.98
373101--373157	1	57.0	1	75	0	51	0	1	10	87	0.61
373101--373158	9	6.7	9	77	15	59	0	1	12	86	0.65
373101--373156	16	3.6	15	85	7	76	0	1	10	87	0.62
373101--373157	25	2.3	24	85	8	78	0	1	10	87	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
385553--385758	78	2.6	78	82	2	234	28	16	30	24	1.97
385553--385755	79	2.6	78	82	3	230	28	16	30	24	1.97
385710--385781	28	2.6	27	84	8	83	25	18	33	23	1.97
385769--386154	52	7.4	51	71	10	215	33	12	24	29	1.93
385659--386159	263	1.9	263	87	4	733	32	13	25	28	1.94
386036--386162	51	2.4	51	82	10	157	33	11	25	29	1.91
388526--388551	13	2.0	13	100	0	52	38	15	15	30	1.88
388505--388571	33	2.0	33	85	0	89	44	16	13	25	1.84
388591--388690	19	5.9	18	73	26	103	38	15	12	35	1.84
388613--388669	13	3.9	13	76	24	60	35	15	14	35	1.88
388594--388688	32	3.0	32	98	0	181	36	15	12	34	1.86
388746--388802	21	2.7	21	97	0	105	36	19	10	33	1.86
388806--388855	10	5.0	10	80	9	66	16	0	0	84	0.63
388806--388855	19	2.5	19	87	6	64	16	0	0	84	0.63
388810--388856	18	2.5	19	83	10	62	14	0	0	85	0.61
388806--388856	21	2.5	21	84	9	61	15	0	0	84	0.63
391287--391344	31	1.9	31	89	6	93	48	10	18	22	1.78
391269--391350	30	2.7	31	79	12	98	50	10	19	19	1.77
391439--391568	31	4.2	31	70	9	77	49	15	17	17	1.80
392571--392610	15	2.8	14	88	7	62	0	17	0	82	0.67
392569--392616	25	1.9	25	83	8	62	2	14	0	83	0.74
396103--396144	18	2.3	19	80	12	52	16	9	0	73	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397262--397325	30	2.2	30	77	8	69	54	3	1	40	1.25
397518--397553	11	3.1	11	92	8	54	0	13	2	83	0.76
399419--399454	18	1.9	18	88	5	54	47	11	11	30	1.74
399938--399977	16	2.5	16	91	0	62	55	2	12	30	1.50
406749--406960	64	3.4	59	81	8	196	47	24	15	12	1.80
406781--406971	64	3.0	64	85	1	247	47	24	15	13	1.80
406749--406996	129	2.0	121	80	9	275	47	23	15	13	1.81
410098--410153	22	2.5	23	97	2	105	62	8	10	17	1.52
411068--411138	20	3.6	19	75	7	70	40	12	11	35	1.79
411061--411138	40	2.0	39	89	2	120	41	12	11	34	1.80
411621--413182	32	48.8	32	95	0	2685	15	18	34	31	1.92
413165--413902	27	27.0	27	92	2	1181	27	14	35	23	1.93
413165--413902	82	9.0	81	92	2	1181	27	14	35	23	1.93
421410--421465	22	2.5	23	97	2	105	62	8	10	17	1.52
422380--422450	20	3.6	19	75	7	70	40	12	11	35	1.79
422373--422450	40	2.0	39	89	2	120	41	12	11	34	1.80
424881--424934	21	2.6	21	74	11	56	38	29	11	20	1.87
425714--425745	16	2.1	15	94	5	55	40	0	3	56	1.15
426408--426448	16	2.4	18	80	15	52	56	2	0	41	1.13
427020--427093	38	1.9	38	83	2	94	63	0	2	33	1.09
427035--427101	21	3.2	21	77	8	57	65	0	2	31	1.07
427771--427852	5	16.2	5	71	16	53	40	0	1	58	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427803--427898	41	2.4	42	82	10	119	42	0	1	56	1.06
429748--429893	77	1.9	77	90	5	233	43	13	9	34	1.76
430459--430496	2	19.0	2	100	0	76	50	0	0	50	1.00
442089--442165	1	77.0	1	84	0	91	0	1	7	90	0.49
442089--442165	12	6.4	12	86	10	113	0	1	7	90	0.49
453638--453666	15	2.0	15	93	6	51	27	20	6	44	1.77
455367--455391	2	12.5	2	100	0	50	52	0	0	48	1.00
457217--457249	13	2.4	14	85	10	50	39	0	3	57	1.14
458227--458256	15	1.9	16	93	6	53	26	13	13	46	1.80
460131--460177	2	23.5	2	100	0	94	51	0	0	48	1.00

Tables:   1   2   3   4