genome.fa.s355.2.7.7.80.10.50.1000.1.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  1  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)
890--920	3	10.3	3	100	0	62	35	0	0	64	0.94
1450--1513	25	2.3	26	82	15	76	54	0	1	43	1.09
2541--2581	15	2.8	15	81	3	57	39	0	0	60	0.96
2891--2934	17	2.4	18	82	17	56	56	2	0	40	1.11
4375--4414	19	2.0	20	85	4	55	57	2	0	40	1.12
5024--5065	2	21.5	2	90	4	68	47	0	2	50	1.14
5999--6035	2	18.5	2	100	0	74	51	0	0	48	1.00
7357--7386	3	10.0	3	100	0	60	66	0	0	33	0.92
7643--7693	21	2.4	22	83	9	61	58	0	1	39	1.09
8344--8380	16	2.3	16	90	9	58	43	2	8	45	1.47
10381--10426	17	2.5	19	86	6	60	56	0	2	41	1.11
10413--10454	19	2.0	22	82	13	54	40	0	0	59	0.97
10413--10455	21	2.0	22	86	13	63	39	0	0	60	0.97
10849--10881	2	16.5	2	93	0	57	48	3	0	48	1.17
11803--11864	11	5.8	11	75	7	56	35	3	1	59	1.23
11813--11851	17	2.2	19	82	17	57	35	0	0	64	0.94
11823--11864	20	2.2	19	86	4	57	35	2	0	61	1.09
12065--12132	25	2.8	24	73	6	64	33	4	1	60	1.26
12759--12786	2	14.0	2	100	0	56	50	0	0	50	1.00
12953--13030	28	2.8	28	77	18	83	37	0	1	61	1.04
12948--13015	12	5.4	12	73	23	52	36	1	1	60	1.15
12957--12996	14	2.8	15	75	25	50	37	0	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12962--13036	16	4.1	18	73	23	59	37	0	1	61	1.05
13195--13241	21	2.2	20	79	17	51	42	6	0	51	1.27
13443--13554	9	10.9	9	71	23	55	56	8	0	34	1.35
13429--13480	21	2.5	21	84	9	70	55	1	0	42	1.10
13467--13554	21	4.1	21	68	18	65	54	9	1	35	1.40
13442--13527	41	2.1	40	80	8	102	55	8	1	34	1.37
13514--13550	12	3.2	12	82	17	51	62	8	0	29	1.24
13526--13635	41	2.7	41	81	4	123	48	6	6	39	1.54
13664--13717	24	2.4	22	81	12	56	51	3	7	37	1.48
13731--13771	22	2.0	21	85	9	57	56	9	0	34	1.32
13542--13896	21	17.9	20	66	22	87	49	8	6	36	1.59
15179--15221	21	2.1	20	86	4	59	55	0	0	44	0.99
18810--18845	2	18.0	2	100	0	72	0	50	0	50	1.00
18849--18878	2	15.0	2	100	0	60	50	50	0	0	1.00
27782--27815	2	18.0	2	88	11	54	50	0	50	0	1.00
27885--27933	23	2.1	23	88	7	73	16	28	10	44	1.80
29316--29361	18	2.5	19	79	13	51	36	0	0	63	0.95
31442--31546	13	7.6	14	69	17	67	45	0	0	54	0.99
31423--31525	8	12.1	8	69	22	59	44	0	0	54	1.06
31462--31547	19	4.7	19	75	4	79	46	0	0	53	1.00
31416--31481	6	10.2	6	74	19	53	40	0	1	57	1.08
31429--31525	27	3.6	27	76	18	96	45	0	1	53	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32449--32509	32	2.0	32	83	6	81	55	3	4	36	1.38
33608--33632	11	2.3	11	100	0	50	16	0	0	84	0.63
34658--34700	5	8.4	5	84	5	50	48	0	0	51	1.00
34652--34726	25	2.8	26	84	9	82	52	0	0	48	1.00
34621--34697	20	3.8	20	74	17	77	51	0	0	48	1.00
37265--37329	32	2.1	31	85	2	85	29	3	12	55	1.52
37311--37344	12	2.8	12	86	0	50	20	0	5	73	1.04
37932--37956	9	2.8	9	100	0	50	20	0	0	80	0.72
37982--38026	23	1.9	24	86	13	67	40	0	0	60	0.97
38149--38214	34	1.9	34	84	6	89	46	0	1	51	1.10
38123--38214	29	3.1	29	75	14	82	47	0	1	51	1.07
38601--38667	16	3.9	17	71	19	59	58	0	0	41	0.98
38602--38696	26	3.7	26	86	10	124	54	0	0	45	0.99
38967--39007	19	2.2	18	91	4	64	39	0	0	60	0.96
38987--39103	29	4.2	30	72	22	85	45	0	0	54	0.99
39040--39082	21	2.0	23	86	9	63	44	0	0	55	0.99
39031--39093	27	2.3	29	81	8	69	44	0	0	55	0.99
39042--39092	21	2.4	21	75	12	50	49	0	0	50	1.00
39434--39489	21	2.5	22	85	5	69	55	0	0	44	0.99
39414--39484	19	3.8	18	70	17	56	52	0	0	47	1.00
39437--39488	27	2.0	25	81	7	59	57	0	0	42	0.98
40480--40515	3	12.0	3	100	0	72	0	33	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
41114--41148	13	2.8	13	95	4	63	25	0	0	74	0.82
41442--41482	21	2.0	21	86	13	59	39	0	0	60	0.96
42076--42126	17	3.1	16	78	10	50	25	5	0	68	1.12
42383--42415	11	2.9	12	86	13	52	27	0	0	72	0.85
42351--42446	40	2.4	41	81	8	99	27	5	2	65	1.25
45724--45773	26	2.0	25	84	11	66	52	10	8	30	1.64
48779--48813	15	2.3	15	85	0	52	62	2	0	34	1.10
49477--49561	37	2.3	37	93	2	145	44	2	11	41	1.54
51455--51486	15	2.1	15	100	0	64	34	12	0	53	1.39
52982--53039	27	2.0	27	83	9	71	58	1	0	39	1.08
53182--53301	60	2.0	60	93	0	204	44	7	14	34	1.73
53354--53387	13	2.6	13	90	0	50	55	2	5	35	1.39
54525--54564	16	2.5	15	80	11	53	35	2	0	62	1.09
55403--55444	19	2.2	20	83	12	52	40	2	0	57	1.12
56208--56264	25	2.2	27	78	12	66	35	5	0	59	1.20
57220--57257	16	2.4	17	82	13	53	31	0	10	57	1.32
57254--57314	24	2.6	25	74	7	65	54	0	0	45	1.00
57254--57325	38	1.9	36	86	5	99	55	0	0	44	0.99
58097--58152	26	2.2	26	81	12	62	67	0	0	32	0.91
59174--59220	17	2.8	17	84	9	53	44	0	0	55	0.99
59242--59297	8	7.6	7	75	16	51	35	0	0	64	0.94
59242--59307	23	2.8	24	79	6	73	37	1	0	60	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59164--59291	16	8.4	16	68	20	62	42	0	0	56	1.05
66773--66810	20	1.9	20	88	0	58	44	0	0	55	0.99
70223--70274	25	2.0	26	85	10	72	36	1	3	57	1.28
70232--70280	24	2.0	25	84	4	64	42	0	4	53	1.20
72589--72636	19	2.5	19	80	6	53	18	12	29	39	1.88
72601--72639	19	2.1	19	90	0	60	15	15	28	41	1.87
74495--74616	59	2.1	59	95	0	217	39	16	9	34	1.82
75551--75598	24	2.0	24	95	0	87	25	2	8	64	1.32
75735--75894	77	2.1	76	90	6	252	41	3	8	46	1.51
75874--75912	18	2.2	18	95	4	71	35	5	0	58	1.20
75882--75922	18	2.3	18	86	0	55	39	4	0	56	1.21
78274--78299	12	2.2	12	100	0	52	30	15	0	53	1.42
79564--79605	18	2.3	18	91	0	66	33	21	7	38	1.81
80063--80134	20	3.6	20	75	0	72	33	12	9	44	1.75
80060--80137	40	2.0	39	87	2	111	33	11	11	43	1.77
81045--81090	20	2.4	19	85	10	58	23	13	8	54	1.66
86948--87014	33	2.0	33	88	0	98	34	11	13	40	1.81
86968--86992	13	1.9	13	100	0	50	36	16	16	32	1.90
87057--87081	13	1.9	13	100	0	50	32	16	16	36	1.90
87090--87210	52	2.3	52	97	0	224	34	18	18	28	1.94
97768--97836	9	7.1	9	83	9	57	85	7	2	4	0.81
97765--97834	20	3.4	20	81	14	72	85	8	2	2	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97766--97823	1	58.0	1	78	0	62	89	6	1	1	0.61
99059--99746	29	23.4	29	84	7	793	28	31	17	22	1.96
99059--99716	263	2.5	260	88	4	939	29	31	17	22	1.96
100330--100401	20	3.6	20	78	0	81	33	13	9	43	1.77
100327--100404	40	2.0	39	89	2	120	33	12	11	42	1.79
101310--101355	20	2.4	19	85	10	58	23	13	8	54	1.66
105561--105832	136	2.0	136	98	0	526	45	13	22	19	1.85
107833--107944	44	2.5	44	95	0	197	30	13	16	39	1.87
112460--112589	46	3.0	42	81	11	154	46	10	19	23	1.80
112810--112921	44	2.5	44	86	0	143	31	12	15	41	1.84

Tables:   1   2   3   4