genome.fa.s100.2.7.7.80.10.50.1000.3.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: Scaffold100
Parameters: 2 7 7 80 10 50 1000
Length:  904619

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 870 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)
275935--275986	15	3.4	16	84	10	65	55	0	3	40	1.18
276257--276304	17	2.8	17	78	12	53	37	0	0	62	0.95
276552--276606	29	2.0	27	82	7	65	56	0	0	43	0.99
276564--276645	43	1.9	42	80	11	96	62	2	0	35	1.09
277359--277424	26	2.4	27	75	12	73	27	6	3	63	1.32
277770--277914	16	10.0	14	63	24	52	42	2	0	55	1.16
278134--278251	49	2.5	46	76	18	118	55	3	3	38	1.34
279446--279533	32	3.1	32	61	35	81	52	6	4	36	1.49
279613--279639	14	1.9	14	100	0	54	25	0	0	74	0.83
279754--279795	17	2.4	18	84	11	61	40	0	4	54	1.21
280705--280733	14	2.1	14	93	6	51	75	0	0	24	0.80
280840--280921	11	7.5	11	73	17	57	67	3	1	28	1.15
280894--280939	25	1.9	25	82	8	60	65	0	0	34	0.93
281925--282013	26	3.4	25	72	23	67	38	3	0	58	1.15
282283--282349	31	2.2	30	81	10	73	49	0	2	47	1.16
282306--282375	31	2.2	32	87	5	97	48	0	1	50	1.09
282361--282410	11	4.8	11	73	14	52	32	6	0	62	1.20
286211--286360	81	1.9	81	95	0	273	34	13	19	32	1.90
288694--289155	98	4.8	99	83	7	578	53	11	8	26	1.65
288970--288998	4	7.2	4	100	0	58	75	0	0	24	0.80
288694--289155	192	2.4	194	86	5	620	53	11	8	26	1.65
289306--289349	23	1.9	23	86	9	63	81	11	4	2	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
289792--289857	31	2.1	32	82	2	80	42	0	1	56	1.08
289817--289879	32	1.9	33	90	3	101	36	0	1	61	1.05
290195--290227	17	2.0	17	94	5	59	63	6	0	30	1.18
290456--290504	21	2.3	22	79	13	57	65	0	2	32	1.04
290612--290666	21	2.5	23	80	14	71	40	0	0	60	0.97
290626--290677	21	2.9	17	77	22	61	40	0	0	59	0.97
301260--301311	20	2.7	18	77	11	59	44	5	1	48	1.38
302461--302520	2	30.5	2	81	3	68	41	3	1	53	1.27
303303--303348	23	2.0	23	83	8	58	52	2	0	45	1.13
303320--303363	21	2.1	21	83	8	54	56	0	0	43	0.99
308510--308566	16	3.6	16	72	11	55	59	8	3	28	1.44
309055--309124	10	6.8	10	74	6	59	28	4	1	65	1.20
309199--309235	12	3.2	12	85	7	51	27	0	2	70	1.01
309180--309236	23	2.7	22	74	17	59	29	0	3	66	1.08
309270--309358	44	2.0	45	88	2	135	21	14	23	40	1.90
309785--309826	11	3.8	11	80	0	57	45	0	0	54	0.99
309783--309833	22	2.3	22	96	0	93	41	0	0	58	0.98
310659--310699	17	2.4	17	88	8	57	48	9	0	41	1.36
313280--313320	18	2.2	20	82	8	50	68	2	0	29	1.03
313468--313562	22	4.9	20	69	27	55	61	0	1	37	1.03
313521--313548	14	2.0	14	100	0	56	57	0	0	42	0.99
313582--313643	9	7.1	9	71	20	51	43	0	1	54	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
313572--313629	26	2.2	27	87	3	82	43	0	1	55	1.10
314931--314986	19	2.7	20	76	20	53	42	0	0	57	0.99
316412--316443	15	2.1	15	94	0	55	37	6	28	28	1.81
317556--317645	29	3.0	28	74	17	83	42	7	2	47	1.44
317570--317645	30	2.6	27	80	15	80	43	7	2	46	1.47
317848--317880	16	2.1	16	94	0	57	39	0	0	60	0.97
322189--322231	18	2.4	17	88	7	59	48	0	4	46	1.22
322204--322266	32	1.9	33	87	3	92	44	0	3	52	1.17
322986--323059	24	3.1	23	78	16	71	44	0	0	55	0.99
323179--323210	16	2.1	15	94	5	55	46	0	15	37	1.46
323397--323438	22	1.9	22	85	9	59	42	0	0	57	0.99
325372--325422	21	2.5	20	83	3	66	37	0	0	62	0.95
331343--331383	21	2.0	22	90	9	68	56	0	0	43	0.99
332287--332341	26	2.2	25	80	9	58	10	1	18	69	1.27
333174--333619	149	3.0	148	96	1	822	21	16	14	47	1.81
341463--341487	11	2.3	11	100	0	50	48	8	8	36	1.62
344279--344344	17	4.0	17	75	16	52	34	3	0	62	1.11
344289--344356	31	2.2	32	86	7	95	38	2	0	58	1.13
344665--344715	24	2.1	24	92	0	84	25	11	11	50	1.72
349296--349345	26	1.9	26	91	0	82	36	8	20	36	1.82
351182--351217	18	2.0	18	100	0	72	22	22	5	50	1.70
354806--355322	278	1.9	278	89	1	804	34	22	11	31	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358643--358701	27	2.3	26	80	13	70	40	0	8	50	1.33
361546--361617	16	4.5	16	68	13	58	19	9	22	48	1.77
362094--362146	20	2.8	20	75	16	58	41	1	0	56	1.10
362129--362183	17	3.4	17	70	25	55	41	1	1	54	1.21
362961--363019	16	3.7	16	73	10	50	71	0	13	15	1.15
373564--373649	32	2.6	33	75	7	93	55	2	2	39	1.25
376397--376428	8	3.8	9	88	12	50	56	0	0	43	0.99
377397--377450	28	2.0	27	89	7	83	53	0	0	46	1.00
377407--377470	28	2.3	27	78	10	65	60	0	1	37	1.06
377738--377782	13	3.5	13	79	14	58	64	0	0	35	0.94
378351--378377	6	4.5	6	100	0	54	51	0	0	48	1.00
378321--378388	20	3.2	21	72	25	54	47	0	0	52	1.00
378518--378584	19	3.5	19	78	9	57	56	4	1	37	1.29
378536--378581	19	2.4	19	82	7	58	56	4	0	39	1.19
378941--379000	32	1.9	32	90	6	97	56	0	0	43	0.99
379033--379071	20	2.0	20	85	10	53	48	0	2	48	1.15
379676--379717	21	2.0	21	86	9	59	50	0	0	50	1.00
382386--382469	42	2.0	42	97	0	159	29	7	15	47	1.72
384162--384201	21	1.9	21	90	10	64	40	0	0	60	0.97
385702--385795	47	2.0	47	100	0	188	42	12	12	31	1.81
387738--387823	45	1.9	45	92	0	145	33	24	18	23	1.97
403080--403156	29	2.7	29	89	0	118	37	11	22	28	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406872--406919	2	25.0	2	79	8	55	47	0	2	50	1.12
406640--409842	362	8.8	360	77	9	2435	37	7	10	44	1.67
406463--409835	734	4.7	714	78	10	2769	37	6	10	45	1.66
409387--409421	18	1.9	18	88	11	54	25	0	0	74	0.82
409866--409903	19	2.2	18	86	13	53	63	0	0	36	0.95
410906--410982	41	1.9	38	85	12	102	64	1	0	33	1.01
412026--412076	8	6.5	8	84	13	70	78	7	0	13	0.96
412019--412070	9	6.2	9	84	8	58	78	5	0	15	0.92
412026--412089	7	8.4	7	78	14	56	76	6	0	17	0.98
412019--412076	24	2.4	25	85	8	84	77	6	0	15	0.97
412262--412335	24	3.1	23	64	11	58	52	6	21	18	1.68
412252--412350	49	2.0	49	96	0	180	55	6	22	16	1.62
412265--412338	25	3.1	23	64	9	58	51	6	24	17	1.69
412271--412355	26	3.4	26	67	15	79	54	4	22	18	1.62
412818--412918	51	1.9	53	88	4	152	31	36	17	13	1.89
412869--412941	33	2.2	33	92	0	119	30	38	16	15	1.89
414115--414139	13	1.9	13	100	0	50	32	16	16	36	1.90
414095--414162	33	2.1	33	89	8	104	36	16	14	32	1.89
420294--420332	13	3.0	13	88	0	60	30	15	17	35	1.91
420464--420504	22	2.0	20	86	13	57	31	21	4	41	1.74
424978--425002	13	1.9	13	100	0	50	36	16	16	32	1.90
424955--425022	33	2.1	33	89	8	104	32	14	16	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
427348--427388	22	2.0	21	86	13	59	41	4	21	31	1.74
427520--427558	13	3.0	13	96	0	69	35	15	17	30	1.91
427748--427784	8	4.9	8	83	12	51	62	24	0	13	1.31
427757--427784	14	2.0	14	100	0	56	64	21	0	14	1.29
433722--433756	13	2.7	13	100	0	70	40	17	14	28	1.88
438722--438851	64	2.0	64	100	0	260	37	13	19	29	1.90
442425--443337	42	21.8	42	80	6	883	12	29	20	37	1.90
442424--443337	84	10.9	84	82	5	972	12	29	20	37	1.90
442423--443325	126	7.2	125	83	5	988	12	29	20	37	1.89
444789--444833	8	5.8	8	82	17	51	22	0	2	75	0.91

Tables:   1   2   3   4   5   6   7   8