genome.fa.s48.2.7.7.80.10.50.1000.3.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: Scaffold48
Parameters: 2 7 7 80 10 50 1000
Length:  4619657

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   

This is table  3  of  27  ( 3212 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)
292269--292333	35	1.9	33	84	6	85	46	0	0	53	1.00
297641--297715	32	2.4	29	76	20	71	50	4	2	42	1.35
299244--299340	27	3.4	28	77	9	81	43	2	1	53	1.19
299292--299333	21	2.0	20	90	4	66	35	2	0	61	1.09
299941--299974	15	2.3	15	94	0	59	55	0	0	44	0.99
301673--301740	15	4.6	15	74	18	54	25	5	23	45	1.75
301659--301741	30	2.8	30	82	7	91	22	7	24	45	1.77
301977--302183	77	2.7	77	79	5	197	38	18	10	32	1.84
302370--302585	80	2.7	78	80	7	227	41	15	12	29	1.85
302368--302560	40	4.8	39	75	11	169	40	15	12	31	1.84
304595--304648	27	2.0	27	100	0	108	18	11	3	66	1.37
306974--307012	12	3.5	12	80	20	57	43	0	5	51	1.24
306974--307017	21	2.1	21	100	0	88	47	0	4	47	1.22
306974--307009	10	3.5	10	85	7	54	44	0	5	50	1.25
313556--313618	28	2.1	30	86	13	87	38	0	4	57	1.20
314266--314304	17	2.4	17	86	4	53	58	0	0	41	0.98
314566--314599	14	2.5	13	81	9	50	55	0	0	44	0.99
314622--314674	2	26.5	2	100	0	106	50	0	0	49	1.00
316936--316993	2	29.0	2	100	0	116	50	0	0	50	1.00
323760--323922	79	2.0	80	90	1	256	31	17	8	42	1.80
329202--329293	45	2.0	45	83	4	114	22	13	18	45	1.84
330559--330593	4	8.8	4	93	0	61	77	2	0	20	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
331004--331051	21	2.2	23	82	14	57	35	2	0	62	1.07
335883--335935	20	2.7	19	73	5	52	33	16	9	39	1.81
336718--336770	24	2.2	25	83	10	65	45	0	0	54	0.99
338037--338064	2	14.0	2	100	0	56	50	0	0	50	1.00
338401--338438	7	5.7	7	90	6	53	47	0	2	50	1.15
338852--338966	5	22.6	5	70	18	69	55	0	1	41	1.16
338854--338919	26	2.6	27	76	9	75	54	0	1	43	1.09
338850--338944	16	6.0	17	70	21	55	55	1	1	42	1.13
338852--338966	21	5.7	20	74	14	87	55	0	1	41	1.16
338875--338944	19	3.7	20	74	16	60	52	1	1	44	1.18
339341--339409	23	3.0	21	74	17	66	33	1	1	63	1.12
339341--339407	24	2.9	22	80	10	71	34	1	1	62	1.13
339799--339840	22	1.9	22	90	9	68	45	0	0	54	0.99
340003--340085	19	4.2	19	70	11	51	57	1	0	40	1.06
340468--340512	14	3.3	13	81	9	54	60	0	2	37	1.09
342976--343048	34	2.1	35	82	12	87	60	2	0	36	1.11
343170--343226	23	2.5	21	81	18	62	45	0	0	54	0.99
343213--343256	15	2.9	15	80	10	54	45	0	0	54	0.99
349401--349489	45	2.0	45	90	0	142	43	6	13	35	1.70
351018--351049	3	10.7	3	93	0	55	31	0	34	34	1.58
351030--351091	12	5.2	12	76	7	54	32	6	14	46	1.70
351072--351100	6	4.8	6	100	0	58	34	13	0	51	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357928--358008	18	4.6	18	71	11	69	40	4	3	50	1.42
358045--358090	7	6.4	7	77	22	51	71	0	2	26	0.97
358356--358426	33	2.2	32	85	7	90	40	1	1	56	1.17
358409--358459	12	4.3	12	71	14	52	41	0	3	54	1.19
358371--358459	35	2.6	34	81	10	85	40	1	3	55	1.24
359790--359951	74	2.2	74	88	2	247	33	11	12	42	1.79
359985--360056	28	2.6	27	78	10	74	23	1	8	66	1.27
360427--360457	16	1.9	16	93	0	53	61	0	0	38	0.96
363566--363601	19	1.9	19	88	5	56	47	5	0	47	1.25
363824--363856	3	11.0	3	100	0	66	66	0	0	33	0.92
364139--364186	17	2.8	17	77	3	51	41	0	2	56	1.11
365318--365359	2	21.5	2	81	13	52	47	2	0	50	1.14
365613--365668	17	3.3	17	76	23	64	51	0	1	46	1.11
366007--366235	5	44.2	5	70	19	89	47	2	0	49	1.21
366014--366556	2	301.5	2	65	26	166	44	5	1	49	1.33
366012--366296	23	13.3	22	68	17	129	45	3	0	50	1.25
366015--366556	44	12.4	44	67	20	212	44	5	1	49	1.33
366073--366178	17	6.4	16	82	10	99	55	2	0	41	1.14
366027--366201	35	5.0	35	77	12	128	50	2	0	46	1.13
366403--366465	21	2.8	23	80	17	71	44	9	1	44	1.46
367813--367869	30	1.9	30	85	0	78	45	12	3	38	1.59
370083--370135	20	2.5	22	76	17	58	47	3	1	47	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
371447--371498	21	2.5	22	78	9	63	34	0	3	61	1.14
371991--372045	21	2.5	22	80	11	60	32	0	9	58	1.30
371296--372613	540	2.4	536	84	5	1658	33	7	13	45	1.72
372533--372585	21	2.5	22	78	9	65	33	0	5	60	1.20
371296--372629	538	2.5	532	82	6	1605	33	7	13	45	1.72
373196--373234	12	3.2	12	89	10	62	10	0	7	82	0.86
373242--373348	41	2.7	40	89	4	162	45	0	5	48	1.25
375387--375429	15	2.8	16	82	6	54	44	16	27	11	1.82
375732--376519	88	8.9	86	77	9	597	40	12	14	32	1.84
375719--376519	179	4.5	178	79	5	719	40	12	14	32	1.83
378594--378815	79	2.8	79	79	5	225	32	14	26	26	1.95
378774--378846	28	2.6	29	80	8	80	26	17	31	24	1.97
378830--379162	52	6.3	52	68	16	179	32	12	26	29	1.92
378983--379057	28	2.7	28	85	0	87	22	18	34	24	1.96
378720--379166	211	2.1	210	94	1	779	31	12	27	27	1.93
381546--381587	21	2.0	21	95	0	75	28	21	9	40	1.84
381604--381655	13	3.5	13	73	26	50	36	17	13	32	1.89
381612--381674	19	3.7	18	76	24	73	36	17	12	33	1.88
381604--381676	32	2.3	32	97	0	137	35	17	12	34	1.88
384390--384446	10	5.7	10	73	26	50	77	3	1	17	1.00
384393--384454	28	2.2	29	85	8	83	75	6	1	16	1.08
384391--384493	21	5.3	19	72	19	70	74	4	5	14	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384582--384607	11	2.4	11	100	0	52	57	0	0	42	0.98
384837--384880	3	14.7	3	100	0	88	65	0	0	34	0.93
384904--384928	2	12.5	2	100	0	50	52	0	0	48	1.00
386008--386057	26	1.9	26	84	8	66	30	8	2	60	1.37
386291--386336	17	2.5	19	86	10	60	21	6	10	60	1.52
386421--386634	105	2.0	106	85	2	288	35	12	5	46	1.63
389904--389954	16	3.0	16	73	15	57	49	0	0	50	1.00
389895--389973	35	2.3	35	88	4	115	41	2	0	55	1.13
394396--394469	22	3.3	23	74	14	75	47	0	0	52	1.00
395110--395158	19	2.3	21	76	20	57	63	2	0	34	1.06
395116--395153	19	1.9	19	89	5	58	63	2	0	34	1.09
395125--395164	17	2.2	19	86	8	57	70	0	0	30	0.88
395360--395394	13	2.7	13	87	12	54	40	0	20	40	1.52
398029--398069	20	2.0	20	90	0	64	48	7	12	31	1.68
398074--398127	20	2.7	20	91	0	81	31	14	9	44	1.77
399840--399873	16	2.1	16	89	10	52	41	0	2	55	1.15
400358--400402	22	2.0	24	86	8	67	42	2	4	51	1.34
401987--402022	1	36.0	1	94	0	63	0	2	97	0	0.18
405562--405653	16	5.8	16	71	10	62	21	14	17	46	1.83
405563--405672	48	2.3	48	82	3	123	22	15	18	43	1.87
405595--405663	16	4.3	16	77	3	59	18	18	17	44	1.86
406793--406836	22	2.0	22	95	0	79	36	2	9	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407902--407987	38	2.3	38	78	15	97	41	3	2	52	1.31
410362--410459	23	4.2	21	89	8	88	44	1	1	53	1.14
410362--410460	46	2.1	47	87	7	148	45	1	1	52	1.14
410689--410722	2	17.0	2	100	0	68	50	0	0	50	1.00
413911--413951	22	1.9	22	90	5	66	60	4	0	34	1.18
416090--416127	20	1.9	19	89	5	58	15	0	84	0	0.63
417575--417600	4	6.5	4	100	0	52	50	23	0	26	1.50
426148--426202	22	2.5	22	82	8	76	23	10	16	49	1.77
428693--428723	16	1.9	16	93	0	53	48	0	3	48	1.17
429584--429652	16	4.3	17	69	10	56	50	11	7	30	1.65

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27