genome.fa.s444.2.7.7.80.10.50.1000.1.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: Scaffold444
Parameters: 2 7 7 80 10 50 1000
Length:  554371

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 509 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)
2104--2193	42	2.2	41	82	6	101	41	2	2	54	1.25
2380--2424	12	3.9	12	78	18	51	31	0	2	66	1.04
2386--2467	22	3.5	24	75	23	61	37	0	1	60	1.04
2970--3002	2	16.5	2	100	0	66	51	0	0	48	1.00
6289--6444	78	2.0	78	100	0	312	25	32	12	29	1.93
14161--14198	17	2.3	17	81	4	51	47	0	0	52	1.00
14157--14207	28	1.9	25	84	11	66	45	0	0	54	0.99
14152--14202	17	3.0	17	75	11	50	49	0	1	49	1.12
14123--14218	34	2.8	34	79	9	104	40	1	3	55	1.23
15004--15043	19	2.1	19	90	0	62	25	12	0	62	1.30
15143--15197	2	29.5	2	78	14	64	56	0	0	43	0.99
17201--17234	15	2.2	16	89	5	52	32	5	2	58	1.37
17884--18082	73	2.8	71	77	11	185	58	2	3	35	1.27
18009--18094	23	4.1	22	78	15	94	66	0	1	32	1.00
17993--18088	11	8.6	11	76	14	81	63	0	2	34	1.06
25339--25392	22	2.5	22	96	3	101	61	9	11	18	1.55
26308--26382	20	3.8	20	80	3	80	40	12	13	34	1.81
26305--26382	40	2.0	39	87	2	111	39	12	12	34	1.82
26991--31287	28	151.5	28	88	3	4746	22	17	32	27	1.96
29107--31287	82	25.7	81	84	7	1151	23	17	33	26	1.96
38772--38825	22	2.5	22	96	3	101	61	9	11	18	1.55
39739--39813	20	3.8	20	80	3	80	40	12	13	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
39736--39813	40	2.0	39	87	2	111	39	12	12	34	1.82
41970--42016	22	2.1	22	96	0	85	44	6	6	42	1.55
42214--42247	2	17.0	2	93	0	59	47	0	0	52	1.00
42365--42433	24	2.8	24	74	10	59	52	0	0	47	1.00
42466--42505	5	8.0	5	82	0	53	47	0	0	52	1.00
42923--42964	22	1.9	22	90	9	68	38	0	0	61	0.96
43547--43651	54	1.9	54	90	0	165	33	11	26	28	1.91
45589--45683	43	2.2	43	78	14	106	50	2	1	46	1.20
45604--45679	22	3.4	23	75	10	77	50	1	1	47	1.18
45656--45697	15	2.5	17	74	18	52	50	0	0	50	1.00
49201--49262	23	2.7	22	85	9	72	56	0	0	43	0.99
51602--51642	21	2.0	21	90	9	66	41	0	0	58	0.98
51613--51679	27	2.5	27	71	9	66	49	0	0	50	1.00
54172--54215	21	2.1	21	82	0	52	45	2	4	47	1.35
55698--55752	21	2.6	21	85	5	76	38	3	1	56	1.28
60944--60981	18	2.1	19	85	9	53	63	2	2	31	1.22
61059--61101	11	4.0	10	80	14	50	65	4	0	30	1.13
62029--62082	27	2.0	28	81	3	65	55	1	1	40	1.21
63719--63758	16	2.4	18	84	16	59	52	0	2	45	1.14
64238--64299	27	2.2	27	85	8	79	54	1	4	38	1.31
65185--65216	2	15.5	2	93	6	55	50	0	3	46	1.17
66017--66041	3	8.3	3	100	0	50	32	0	32	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66040--66098	3	19.7	3	100	0	118	33	0	0	66	0.92
68145--68283	10	14.7	10	65	23	52	42	2	0	53	1.20
68272--68332	20	3.0	20	75	13	63	24	3	1	70	1.11
68272--68330	11	4.7	12	72	24	50	25	3	1	69	1.13
68332--68424	46	2.0	47	91	2	152	37	16	4	41	1.68
72178--72222	22	2.1	22	88	12	67	37	0	0	62	0.96
72441--72483	21	2.1	20	91	4	68	20	0	0	79	0.74
72446--72483	11	3.5	11	82	7	51	18	0	0	81	0.69
73661--73737	2	38.5	2	87	5	111	46	0	5	48	1.24
73787--73813	2	13.5	2	100	0	54	51	0	0	48	1.00
74051--74084	15	2.4	14	86	13	52	52	0	0	47	1.00
75824--75904	39	2.0	41	81	9	96	39	7	6	46	1.57
76223--76279	16	3.6	16	73	0	60	40	10	5	43	1.62
76440--76513	16	4.6	16	86	0	94	43	9	2	44	1.51
82380--82408	10	3.0	10	95	5	51	37	0	0	62	0.96
82125--83492	340	3.9	340	85	7	1631	36	7	9	46	1.65
88477--88512	17	2.2	17	95	5	65	41	5	5	47	1.50
88575--88615	20	2.0	20	85	0	55	56	4	2	36	1.34
90123--90160	3	12.7	3	94	0	67	31	2	0	65	1.06
91123--91180	2	29.0	2	92	0	98	50	3	0	46	1.18
91637--91666	14	2.1	14	93	0	51	50	3	0	46	1.18
92221--92253	3	11.0	3	100	0	66	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93143--93191	2	24.5	2	91	0	71	44	0	6	48	1.27
93261--93289	2	14.5	2	100	0	58	48	0	0	51	1.00
99566--99596	3	10.3	3	100	0	62	67	0	0	32	0.91
99592--99619	4	7.0	4	100	0	56	75	0	0	25	0.81
100030--100079	22	2.3	22	79	3	57	48	0	16	36	1.46
100045--100088	22	2.0	22	86	4	63	52	0	9	38	1.33
101194--101246	18	2.9	18	81	13	65	43	1	0	54	1.11
102411--102457	20	2.3	21	82	7	62	42	0	2	55	1.12
103730--103808	39	2.0	39	97	0	149	26	27	27	17	1.98
105870--105920	3	17.3	3	95	4	95	68	0	0	31	0.90
106504--106570	25	2.7	26	77	11	68	50	0	0	49	1.00
107880--107940	17	3.4	19	80	19	69	42	1	0	55	1.09
108521--108553	11	2.8	12	81	9	50	63	0	0	36	0.95
108928--108973	24	2.0	23	86	4	65	52	2	6	39	1.40
108965--109009	21	2.3	20	88	11	67	53	6	2	37	1.40
109064--109117	17	3.4	16	78	21	60	57	0	0	42	0.98
109063--109106	17	2.9	14	81	18	61	59	0	0	40	0.98
110402--110449	21	2.1	22	85	11	62	64	0	8	27	1.22
116774--116811	3	12.7	3	100	0	76	31	0	0	68	0.90
117177--117204	2	14.0	2	100	0	56	50	0	0	50	1.00
117557--117601	22	2.0	22	87	8	65	57	0	0	42	0.98
119192--119239	24	2.0	24	84	8	62	37	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121508--121555	25	1.9	25	86	0	69	25	10	27	37	1.88
122815--122847	16	2.1	16	94	0	57	63	0	0	36	0.95
122762--122858	39	2.4	42	78	15	105	52	0	0	47	1.00
123386--123473	33	2.6	34	78	10	92	37	5	9	47	1.59
123875--123904	14	2.1	14	93	0	51	53	0	16	30	1.44
123889--123939	25	2.0	25	96	0	93	45	5	11	37	1.65
123936--123995	29	2.0	31	84	12	81	60	3	1	35	1.23
124213--124287	37	2.0	37	94	0	132	41	4	20	34	1.71
124434--124494	22	2.8	22	97	0	113	39	9	0	50	1.35
124864--124917	3	18.0	3	100	0	108	66	0	0	33	0.92
124933--124985	26	2.1	25	85	3	70	54	0	0	45	0.99
125118--125183	3	22.0	3	100	0	132	33	0	0	66	0.92
127079--127104	2	13.0	2	100	0	52	50	0	0	50	1.00
128399--128629	127	1.8	129	83	3	315	50	6	8	34	1.59
128808--128864	6	9.8	6	71	21	50	63	1	1	33	1.15
128810--128862	17	3.1	16	79	12	61	64	1	1	32	1.15
129749--129963	119	1.8	119	85	2	306	40	6	12	40	1.68
130173--130232	22	2.7	21	85	10	75	28	0	3	68	1.05
130323--130377	3	18.7	3	92	3	94	34	0	0	65	0.93
132136--132257	1	122.0	1	95	0	208	2	0	96	0	0.23
134255--134301	5	9.4	5	77	9	51	46	0	0	53	1.00
134262--134311	25	2.1	25	88	7	77	42	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
134300--134360	22	2.9	21	75	15	63	54	0	0	45	1.00
135078--135120	3	14.3	3	100	0	86	67	0	0	32	0.91
135966--136007	16	2.7	15	82	10	50	59	0	0	40	0.97
136247--136277	3	10.3	3	100	0	62	64	0	0	35	0.94
138195--138220	12	2.2	12	100	0	52	0	0	80	19	0.71
138765--138854	46	2.0	46	86	4	128	61	5	4	28	1.38
138963--139043	41	2.0	41	87	4	119	34	12	11	41	1.78
139660--140727	591	1.8	590	80	5	1305	39	9	11	39	1.74
140270--140368	51	1.9	51	83	4	128	31	13	17	38	1.88
141127--141157	2	15.5	2	100	0	62	51	0	0	48	1.00

Tables:   1   2   3   4   5