genome.fa.s106.2.7.7.80.10.50.1000.3.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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  ( 3135 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)
265897--265972	24	3.1	24	78	15	68	42	1	0	56	1.07
266646--266704	28	2.2	26	81	6	64	27	16	10	45	1.80
267230--267341	29	3.8	29	77	5	109	44	8	1	45	1.43
267229--267341	58	1.9	59	85	5	158	45	7	1	45	1.43
268461--268509	21	2.3	22	75	10	57	42	0	2	55	1.11
268539--268581	21	2.0	21	86	8	61	58	0	0	41	0.98
274035--274086	16	3.1	16	73	10	50	55	0	0	44	0.99
279562--279625	22	2.9	21	76	17	67	46	1	0	51	1.10
280028--280068	19	2.2	18	91	4	64	48	0	0	51	1.00
285963--286055	31	3.0	32	81	10	106	77	0	19	3	0.90
285961--286054	6	15.8	6	71	20	65	77	0	19	3	0.90
286015--286059	13	3.6	12	79	8	54	68	0	24	6	1.13
286865--286900	17	2.1	17	89	0	54	83	0	16	0	0.65
286990--287021	16	1.9	17	93	6	57	46	0	0	53	1.00
289646--289685	2	20.0	2	100	0	80	50	0	0	50	1.00
290559--290603	22	2.1	21	83	4	54	51	0	0	48	1.00
290843--290876	12	2.8	12	86	0	50	38	0	2	58	1.13
293977--294015	18	2.2	18	85	0	51	0	38	0	61	0.96
294932--294972	21	2.0	20	86	13	57	24	4	0	70	1.06
295270--295314	18	2.5	17	82	10	63	75	0	4	20	0.97
295272--295306	9	3.8	9	96	3	61	80	0	0	20	0.72
295339--295385	13	3.5	13	76	21	51	10	6	6	76	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296407--296460	11	4.9	11	82	8	74	24	1	1	72	1.05
296666--296751	22	3.7	23	75	13	88	51	3	1	44	1.26
296850--296895	22	2.1	22	87	0	65	56	8	0	34	1.30
297710--297776	34	1.9	36	84	6	93	56	0	2	40	1.14
297692--297787	36	2.6	37	73	18	94	54	2	2	41	1.24
308569--308616	19	2.5	19	77	16	55	70	0	2	27	0.98
308592--308649	21	2.9	20	78	12	57	62	3	0	34	1.12
319733--319765	2	16.5	2	100	0	66	51	0	0	48	1.00
322475--322505	2	15.5	2	100	0	62	51	0	0	48	1.00
323261--323305	23	2.0	23	95	0	81	40	2	8	48	1.47
328639--328958	102	3.1	102	92	0	507	26	7	25	40	1.82
328639--328960	34	9.5	34	81	7	359	26	7	25	40	1.82
330948--331014	33	2.0	33	88	0	98	34	11	13	40	1.81
330968--330992	13	1.9	13	100	0	50	36	16	16	32	1.90
331055--331079	13	1.9	13	100	0	50	32	16	16	36	1.90
331088--331217	52	2.5	52	91	3	201	33	19	16	31	1.94
337009--337227	102	2.2	101	88	1	321	25	8	25	40	1.84
337009--337229	34	6.5	33	85	3	271	25	8	25	40	1.84
338529--338563	15	2.2	17	90	10	56	45	2	5	45	1.41
339233--339465	50	4.6	50	86	4	308	31	18	18	32	1.95
339233--339465	100	2.3	101	90	0	360	31	18	18	32	1.95
343879--344061	101	1.8	100	89	1	285	28	20	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
343879--344063	50	3.7	51	91	2	275	29	20	19	31	1.97
344591--344806	34	6.4	33	81	5	218	26	4	24	43	1.73
344591--344808	67	3.3	65	83	5	233	26	4	24	44	1.73
344591--344806	101	2.1	101	87	0	306	26	4	24	43	1.73
345112--345161	19	2.6	19	83	0	73	34	16	14	36	1.88
349207--349391	34	5.5	34	84	0	237	24	7	27	40	1.82
349207--349391	68	2.7	68	90	0	273	24	7	27	40	1.82
349207--349391	102	1.8	101	87	3	273	24	7	27	40	1.82
352987--353020	17	2.0	17	88	0	50	44	2	0	52	1.16
353788--353834	17	2.6	18	73	6	51	38	2	0	59	1.09
354424--354467	20	2.1	21	87	4	63	45	4	9	40	1.56
354454--354509	21	2.7	21	76	15	62	39	7	8	44	1.63
354495--354627	21	6.3	20	76	9	106	36	0	7	55	1.34
354497--354575	9	7.9	9	70	20	50	39	0	6	54	1.26
354494--354627	62	2.1	63	82	8	157	35	0	8	55	1.35
354507--354608	41	2.5	42	80	6	109	35	0	5	57	1.29
354548--354644	32	3.0	33	73	13	94	34	1	7	57	1.33
354633--354744	19	5.6	19	70	12	73	33	8	8	50	1.63
354687--354742	21	2.7	21	81	8	69	30	8	7	53	1.59
355008--355063	21	2.7	20	81	10	58	33	5	12	48	1.64
355460--355502	20	2.2	20	86	0	59	51	2	0	46	1.13
355791--355830	21	1.9	21	84	0	53	45	0	2	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
357085--357130	10	4.4	11	81	10	60	43	0	2	54	1.12
357085--357130	21	2.2	21	96	0	83	43	0	2	54	1.12
357392--357440	4	11.8	4	78	8	53	44	0	4	51	1.20
357394--357449	17	3.3	17	75	9	69	48	0	5	46	1.25
357377--357436	30	2.0	31	96	3	113	43	0	5	51	1.23
361032--361072	2	20.5	2	89	0	64	43	0	4	51	1.23
361509--361550	20	2.0	22	86	9	61	38	2	0	59	1.10
375064--375102	13	3.0	13	92	0	69	30	17	15	35	1.91
377570--377594	13	1.9	13	100	0	50	32	16	16	36	1.90
377642--377709	33	2.1	33	86	8	95	38	14	14	32	1.87
384639--384696	28	2.1	28	93	0	98	46	5	24	24	1.72
385819--385848	16	1.9	16	93	6	53	73	0	0	26	0.84
385815--385855	12	3.2	13	78	21	50	70	0	0	29	0.87
385819--385863	17	2.8	17	83	12	51	68	2	0	28	1.01
385811--385871	26	2.3	28	75	11	65	60	1	0	37	1.07
385876--385939	22	2.9	22	72	9	67	57	1	0	40	1.08
386033--386070	5	7.8	5	97	2	69	15	0	0	84	0.63
387964--387999	11	3.3	11	84	0	54	30	0	5	63	1.17
387974--388027	28	1.9	28	85	7	74	37	1	1	59	1.19
388763--388827	20	3.0	21	78	15	62	40	0	1	58	1.07
388752--388814	18	3.4	17	74	21	56	42	0	1	55	1.09
389240--389283	21	2.1	21	87	4	63	31	0	0	68	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402010--402044	18	1.9	18	94	0	61	5	37	14	42	1.69
402860--402909	11	4.6	11	75	12	50	66	0	0	34	0.92
403905--403958	24	2.5	20	77	17	54	51	0	0	48	1.00
404036--404078	22	2.0	21	86	4	59	53	0	4	41	1.21
404272--404323	20	2.7	20	90	3	79	59	1	9	28	1.40
404644--404682	18	2.1	19	85	4	53	66	5	0	28	1.12
406216--406280	33	2.1	31	82	8	78	58	0	0	41	0.98
411633--411671	20	2.0	20	94	0	69	43	2	0	53	1.14
417941--417970	15	1.9	16	93	6	53	56	0	0	43	0.99
419991--420017	8	3.4	8	100	0	54	40	11	0	48	1.39
421181--421276	28	3.4	28	73	11	88	60	0	2	37	1.09
421203--421308	19	5.6	20	72	23	61	54	0	0	44	1.06
421183--421288	17	5.8	19	68	24	59	57	0	1	40	1.09
421221--421288	35	2.0	33	86	11	93	55	0	1	42	1.08
421270--421309	20	2.0	20	90	0	62	40	0	0	60	0.97
421536--421579	21	2.1	21	87	8	63	68	0	0	31	0.90
423840--423878	20	2.0	20	94	0	69	43	2	0	53	1.14
431431--431498	35	1.9	36	85	14	97	33	1	0	64	1.02
431673--431714	20	2.0	20	86	9	57	26	4	2	66	1.23
431971--432019	14	3.6	14	83	2	55	38	0	0	61	0.96
433556--433604	21	2.3	22	79	10	57	32	0	2	65	1.04
433589--433641	18	2.9	17	78	18	54	37	1	0	60	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433545--433661	58	2.1	55	80	12	123	35	0	3	60	1.19
433902--433941	15	2.5	16	88	8	55	57	0	0	42	0.98
433902--433944	16	2.6	17	85	10	63	55	0	0	44	0.99
434999--435064	28	2.5	27	80	7	64	46	0	1	51	1.10
435098--435149	21	2.5	22	81	9	56	59	0	0	40	0.97
435478--435519	18	2.3	18	100	0	84	52	9	4	33	1.55
436053--436129	38	2.0	38	100	0	154	36	12	25	24	1.92
436918--437000	29	2.8	29	71	12	78	54	7	1	37	1.36
437315--437549	125	1.9	127	83	7	307	54	2	8	35	1.43
448863--448928	22	3.0	24	82	14	88	59	0	0	40	0.98

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