genome.fa.s3.2.7.7.80.10.50.1000.3.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: Scaffold3
Parameters: 2 7 7 80 10 50 1000
Length:  6198200

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   28   29   30   31   32   

This is table  3  of  32  ( 3795 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)
254983--255016	14	2.3	15	85	10	52	44	2	8	44	1.50
255352--255388	14	2.5	15	83	16	51	70	0	10	18	1.16
255990--256052	24	2.6	24	78	9	65	57	1	0	41	1.08
257927--257991	19	3.4	19	72	12	53	52	0	0	47	1.00
258090--258124	2	17.5	2	93	0	61	45	0	0	54	0.99
258543--258599	28	2.0	30	82	6	73	33	3	5	57	1.38
258627--258674	21	2.3	21	82	7	53	50	0	4	45	1.21
259246--259284	19	2.1	19	85	0	51	48	0	0	51	1.00
259256--259324	32	2.2	32	89	0	102	50	4	1	43	1.30
259264--259338	32	2.3	32	83	0	96	46	6	1	45	1.37
269473--269501	2	14.5	2	100	0	58	48	0	0	51	1.00
269900--269931	2	16.0	2	100	0	64	50	0	0	50	1.00
271558--271613	23	2.5	23	78	16	64	75	0	19	5	1.00
271561--271663	22	4.6	23	70	15	65	71	0	22	5	1.06
271631--271670	18	2.2	19	86	4	55	77	0	12	10	0.99
271632--271670	17	2.2	19	90	9	64	76	0	12	10	1.01
271918--271981	32	1.9	32	87	12	94	46	0	0	53	1.00
271932--272003	32	2.2	33	87	7	103	43	0	0	56	0.99
271933--271992	21	2.9	21	78	11	61	45	0	0	55	0.99
271941--271992	22	2.4	22	84	9	63	44	0	0	55	0.99
271982--272016	6	6.0	6	86	6	54	34	2	0	62	1.10
271982--272019	17	2.2	17	95	0	67	36	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
271983--272026	22	2.0	22	90	4	70	36	4	0	59	1.18
271988--272027	17	2.4	16	88	8	62	35	5	0	60	1.19
272030--272065	13	2.6	14	86	13	56	30	8	0	61	1.26
272190--272237	14	3.4	14	76	2	51	56	6	0	37	1.25
272184--272246	28	2.2	28	80	5	74	50	6	0	42	1.27
274113--274160	19	2.6	18	83	3	60	33	0	6	60	1.22
274138--274187	15	3.4	15	78	8	50	38	0	2	60	1.09
274110--274248	9	14.4	9	67	22	61	41	0	2	55	1.15
274132--274241	38	2.8	38	85	8	125	42	0	0	56	1.05
274211--274249	5	8.0	5	88	11	55	56	0	0	43	0.99
274211--274260	24	2.1	23	85	3	64	56	0	0	44	0.99
277323--277368	23	2.0	23	82	4	56	34	8	0	56	1.30
277496--277529	17	2.0	17	88	11	52	50	0	0	50	1.00
278831--278858	2	14.0	2	100	0	56	50	0	0	50	1.00
279110--279166	19	3.1	19	82	12	57	36	0	0	63	0.95
279696--279772	30	2.5	30	85	2	91	44	5	1	49	1.33
284559--284603	16	2.7	17	79	3	56	62	0	2	35	1.08
285881--285922	21	2.1	19	86	13	57	59	0	0	40	0.97
286589--286636	19	2.3	21	79	10	55	60	2	0	37	1.09
291126--291155	6	4.8	6	95	4	51	16	0	33	50	1.46
292034--292082	21	2.3	21	86	13	66	30	2	0	67	1.02
292072--292124	23	2.4	22	75	9	54	52	1	0	45	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
293666--293702	16	2.3	17	81	13	51	40	0	8	51	1.32
294608--294666	25	2.2	26	88	8	84	57	0	1	40	1.09
296224--296248	2	12.5	2	100	0	50	48	0	0	52	1.00
296690--296736	20	2.3	20	82	7	60	65	0	0	34	0.93
297215--297258	19	2.2	20	80	4	54	61	2	2	34	1.21
298279--298316	2	19.0	2	100	0	76	50	0	0	50	1.00
298607--298681	29	2.6	28	78	14	80	40	2	0	57	1.13
298609--298678	30	2.4	28	80	17	81	38	2	0	58	1.13
301811--301866	20	2.7	21	78	10	62	50	0	0	50	1.00
301840--301888	16	3.2	16	77	11	57	44	0	0	55	0.99
302376--302400	13	1.9	13	100	0	50	32	0	0	68	0.90
302714--302741	14	2.0	14	100	0	56	64	0	0	35	0.94
302723--302965	124	2.0	119	81	10	274	53	2	4	39	1.33
303253--303277	12	2.1	12	100	0	50	24	8	32	36	1.84
310966--311018	17	3.1	17	88	2	70	54	3	0	41	1.18
311540--311577	16	2.5	15	84	12	51	57	0	7	34	1.28
312632--312677	20	2.3	20	84	0	56	41	10	6	41	1.66
312188--313072	469	1.9	472	88	1	1364	29	18	18	33	1.95
314778--314826	20	2.5	19	80	9	53	16	8	4	71	1.26
318139--318970	89	9.3	89	83	4	949	31	15	13	38	1.87
318139--318970	180	4.6	180	86	1	1064	31	15	13	38	1.87
318139--318959	269	3.1	266	85	4	1080	32	15	13	38	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
318907--319037	69	1.9	68	88	1	199	30	13	13	41	1.84
319103--319148	22	2.1	22	84	8	58	50	4	6	39	1.48
321501--321545	21	2.1	21	87	0	63	55	4	2	37	1.32
322029--322070	14	3.1	14	83	12	52	40	0	0	59	0.97
322442--322487	20	2.4	19	85	10	58	69	2	2	26	1.11
322442--322492	19	2.6	19	84	9	59	64	1	3	29	1.22
322726--322794	34	2.0	34	97	0	129	62	8	1	27	1.33
323117--323180	24	2.6	24	75	2	65	59	0	1	39	1.07
324409--324695	146	2.0	146	97	2	540	42	9	5	42	1.60
325323--325390	32	2.0	32	83	11	82	45	0	0	54	0.99
325421--325462	22	1.9	22	90	0	66	28	0	0	71	0.86
325419--325460	11	3.8	11	75	12	50	28	0	0	71	0.86
325419--325470	22	2.4	21	80	6	59	30	1	0	67	1.02
329618--329659	18	2.3	18	87	0	57	59	4	2	33	1.31
330249--330311	31	2.1	30	82	14	76	55	0	0	44	0.99
330227--330335	39	2.8	38	83	8	112	54	0	0	45	1.00
330227--330346	38	3.1	37	79	14	118	53	0	0	46	1.00
330301--330339	14	2.9	14	88	3	53	58	0	0	41	0.98
330435--330476	19	2.3	18	87	4	57	38	7	2	52	1.42
330538--330579	17	2.5	17	80	7	50	57	0	0	42	0.99
332606--332634	13	2.1	14	93	6	51	48	0	0	51	1.00
332725--332769	19	2.5	19	85	7	58	35	4	0	60	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
332811--332846	14	2.7	13	91	8	63	69	0	0	30	0.89
332811--332850	11	3.9	10	84	15	55	70	0	0	30	0.88
332809--332850	17	2.8	14	80	19	57	69	0	0	30	0.89
333799--333840	22	1.9	22	85	9	59	45	0	2	52	1.13
334379--334435	21	2.7	21	94	2	96	59	0	0	40	0.97
334363--334470	24	4.5	24	72	21	91	62	0	0	36	1.08
334418--334483	29	2.3	29	82	7	73	57	1	1	39	1.17
334462--334499	13	2.9	14	80	11	53	57	0	0	42	0.98
334392--334491	52	1.9	53	85	6	141	56	1	1	42	1.13
334529--334622	16	5.4	16	65	16	53	54	0	1	44	1.07
334595--334671	32	2.4	32	84	8	102	55	1	2	40	1.22
334526--334695	71	2.4	73	80	9	172	55	1	1	41	1.17
334645--334712	34	2.0	35	82	8	86	55	2	0	41	1.15
334908--334953	19	2.4	20	75	10	51	52	4	2	41	1.33
340314--340545	116	2.0	115	92	0	383	51	7	7	33	1.58
342452--342489	19	1.9	20	89	10	60	50	0	0	50	1.00
342450--342495	20	2.4	19	82	10	58	50	0	0	50	1.00
342496--342566	26	2.8	24	79	12	70	46	0	2	50	1.16
343204--343339	71	1.9	69	84	8	177	55	0	3	40	1.17
343236--343381	35	4.3	34	75	11	129	54	0	3	41	1.22
343236--343381	36	4.3	32	77	14	132	54	0	3	41	1.22
348175--348226	18	3.1	17	78	8	61	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)
348187--348225	16	2.4	16	87	12	62	58	0	0	41	0.98
348184--348229	14	3.1	15	82	14	60	58	0	0	41	0.98
348257--348313	15	3.9	15	75	13	55	56	0	0	43	0.99
348257--348289	7	4.7	7	85	14	50	57	0	0	42	0.98
348257--348312	29	2.0	28	82	3	67	55	0	0	44	0.99
348186--348297	34	3.2	33	71	16	84	51	0	0	46	1.13
349107--349328	117	1.9	117	90	3	358	54	6	5	33	1.50
349278--349323	24	2.0	23	82	4	56	65	6	4	23	1.35
349124--349362	117	2.0	115	82	9	279	53	6	7	32	1.54
349406--349571	84	2.0	83	90	3	262	63	7	7	21	1.46

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   28   29   30   31   32