genome.fa.s103.2.7.7.80.10.50.1000.1.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: Scaffold103
Parameters: 2 7 7 80 10 50 1000
Length:  2633873

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  1  of  21  ( 2458 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)
104--156	21	2.5	21	72	6	54	35	28	3	32	1.75
1111--1177	34	1.9	35	84	3	91	19	10	14	55	1.68
2976--3059	26	3.2	27	85	8	120	40	15	8	35	1.77
21588--21831	97	2.6	94	79	5	249	31	13	29	26	1.94
24970--25178	28	7.4	28	94	0	346	19	18	34	27	1.95
38699--38737	21	1.9	20	84	5	51	43	2	5	48	1.38
40193--40220	13	2.2	13	100	0	56	39	17	14	28	1.89
40289--40334	19	2.4	19	96	0	83	36	19	10	32	1.87
40832--40879	19	2.5	19	90	6	71	27	12	12	47	1.77
40933--40984	20	2.6	20	84	6	70	34	13	17	34	1.89
46754--46811	23	2.5	24	91	5	100	39	13	5	41	1.67
51457--51514	23	2.5	24	94	5	109	37	15	5	41	1.70
54512--54568	13	3.9	13	76	24	60	35	14	17	33	1.90
54525--54585	19	3.6	18	75	25	69	32	11	18	37	1.86
54511--54595	32	2.7	32	96	0	152	32	11	17	37	1.86
54640--54664	13	1.9	13	100	0	50	32	16	16	36	1.90
54673--54801	52	2.5	52	92	0	222	36	17	17	28	1.93
58337--58389	19	2.7	20	91	2	81	30	15	16	37	1.90
58324--58424	52	1.9	54	85	4	143	30	13	16	38	1.88
58375--58457	13	7.3	13	65	29	64	34	12	15	37	1.85
58354--58457	33	3.2	33	94	2	174	34	13	16	35	1.88
58388--58455	20	3.8	20	69	25	69	36	11	14	36	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
62748--62821	20	3.7	20	82	7	87	40	8	17	33	1.79
66139--66183	2	22.5	2	86	0	54	51	2	0	46	1.13
66321--66354	11	3.2	11	95	4	61	47	0	0	52	1.00
66383--66425	20	2.2	20	82	0	50	46	0	0	53	1.00
66719--66756	3	12.3	3	88	5	58	65	2	0	31	1.06
67839--67864	13	2.0	13	100	0	52	30	15	15	38	1.88
67819--67882	32	2.0	33	87	3	94	28	12	15	43	1.83
68510--68600	39	2.3	40	77	9	96	34	21	5	38	1.77
70279--70325	21	2.3	21	82	10	62	44	4	19	31	1.70
70437--70461	13	1.9	13	100	0	50	32	16	20	32	1.94
74377--74421	21	2.1	21	84	8	56	22	20	4	53	1.63
75904--75959	20	2.8	19	89	5	76	39	14	16	30	1.88
76018--76043	13	2.0	13	100	0	52	38	15	15	30	1.88
78260--78304	21	2.1	21	84	8	56	53	4	20	22	1.63
80108--80138	15	2.1	15	93	0	53	48	16	22	12	1.80
82217--82255	13	3.0	13	92	0	69	28	15	17	38	1.91
84033--84076	14	3.4	14	75	18	58	34	4	13	47	1.63
84025--84076	25	2.1	25	100	0	104	36	3	11	48	1.58
84817--84842	13	2.0	13	100	0	52	38	15	15	30	1.88
86603--86628	13	2.0	13	100	0	52	30	15	15	38	1.88
89266--89349	40	2.2	38	78	17	95	26	0	4	69	1.08
92669--92710	14	3.0	14	82	6	50	42	0	2	54	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92659--92715	23	2.5	24	83	11	75	45	0	1	52	1.11
94079--94121	14	3.1	15	80	16	56	41	0	2	55	1.12
94101--94147	21	2.3	20	82	14	60	55	0	0	44	0.99
94101--94153	18	2.6	21	85	11	67	52	0	0	47	1.00
94101--94154	19	2.6	22	83	13	71	51	0	0	48	1.00
94677--94724	20	2.5	19	81	18	64	56	0	0	43	0.99
99726--99752	3	9.0	3	100	0	54	66	0	33	0	0.92
100478--100539	29	2.1	30	96	3	117	45	0	0	54	0.99
100467--100514	23	2.1	23	88	0	69	39	0	2	58	1.10
100492--100543	12	3.3	18	65	34	55	46	0	0	53	1.00
100638--100679	15	2.8	15	79	20	52	66	0	0	33	0.92
100653--100700	25	2.0	23	88	11	71	70	0	0	29	0.87
101343--101397	18	3.2	18	82	7	62	78	0	20	1	0.85
101449--101486	18	2.0	20	85	10	53	47	2	0	50	1.15
101471--101561	22	4.2	21	72	13	69	30	3	2	63	1.22
101802--101881	24	3.4	24	77	18	78	33	0	1	65	1.01
101965--102010	18	2.5	19	83	13	53	41	0	6	52	1.27
103241--103293	20	2.8	20	83	13	67	41	0	0	58	0.98
103289--103362	25	2.7	27	72	19	73	29	2	5	62	1.31
103272--103349	32	2.4	34	76	10	81	32	1	3	62	1.21
103480--103524	23	1.9	24	90	4	74	46	0	0	53	1.00
104528--104567	19	2.0	19	85	9	53	45	2	0	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104985--105017	15	2.2	15	94	0	57	84	0	15	0	0.61
105020--105122	12	7.7	14	69	17	67	33	0	0	65	1.00
105027--105067	21	2.0	22	81	18	52	29	0	0	70	0.87
105031--105114	19	4.3	20	65	22	54	33	1	0	65	1.00
105097--105165	16	4.2	16	75	14	52	30	1	5	62	1.27
105291--105333	19	2.3	18	84	4	50	27	9	4	58	1.49
105629--105684	15	3.7	15	76	7	51	76	0	21	1	0.87
105627--105684	30	1.9	30	83	13	75	77	0	20	1	0.86
105625--105684	26	2.3	26	79	2	66	76	0	21	1	0.87
105703--105766	28	2.3	28	81	5	76	37	0	1	60	1.06
105702--105766	27	2.3	28	82	12	80	38	0	1	60	1.07
105934--105970	19	2.0	19	89	5	58	16	5	10	67	1.38
106560--106618	31	2.0	30	84	12	79	40	1	3	54	1.27
106660--106698	13	3.2	13	85	14	64	30	5	0	64	1.15
106660--106707	24	2.0	24	88	8	71	31	6	2	60	1.33
106760--106809	27	1.9	26	84	8	66	44	0	0	56	0.99
106785--106827	16	2.7	16	82	13	61	44	0	0	55	0.99
106787--106827	17	2.6	16	81	11	57	43	0	0	56	0.99
107845--107906	16	4.1	16	72	18	51	70	0	0	29	0.87
107846--107906	29	2.1	29	88	8	90	70	0	0	29	0.88
108826--108869	20	2.2	20	87	0	61	52	15	0	31	1.44
108950--108996	16	3.0	16	78	12	53	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108950--109022	33	2.3	33	81	13	82	38	1	0	60	1.06
109298--109347	20	2.5	20	87	6	66	42	0	0	58	0.98
109289--109347	20	2.8	22	82	12	63	42	0	0	57	0.98
109375--109421	16	2.8	16	84	15	51	38	0	0	61	0.96
110247--110293	19	2.5	19	79	3	60	38	4	0	57	1.18
110269--110339	32	2.2	32	85	12	92	33	1	1	63	1.12
110945--110980	18	2.1	18	89	5	56	47	5	0	47	1.25
111137--111184	24	2.0	24	88	4	71	54	2	2	41	1.24
111658--111688	16	2.0	15	93	6	53	25	12	3	58	1.50
112347--112375	2	14.5	2	100	0	58	51	0	0	48	1.00
113679--113724	24	1.9	24	86	0	65	52	0	0	47	1.00
113695--113735	15	2.7	16	85	11	59	43	0	0	56	0.99
113688--113749	8	8.0	8	73	18	51	40	0	0	59	0.97
113688--113735	15	3.1	15	77	17	53	43	0	0	56	0.99
114082--114139	18	3.1	19	80	9	66	63	0	3	32	1.11
114685--114725	12	3.5	12	83	9	50	26	0	0	73	0.84
114684--114727	17	2.5	17	88	3	70	25	0	0	75	0.81
115763--115818	21	2.7	20	75	10	58	57	3	0	39	1.16
116077--116148	30	2.5	30	77	11	78	40	4	1	54	1.28
116139--116183	23	2.0	23	82	8	56	37	2	2	57	1.23
116161--116216	18	3.1	19	70	12	55	44	0	0	55	0.99
116203--116234	15	2.1	16	94	5	57	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)
116225--116253	6	4.8	6	100	0	58	82	0	0	17	0.66
116542--116594	21	2.4	22	81	15	65	49	0	1	49	1.12
117084--117141	24	2.4	24	80	5	64	60	0	1	37	1.07
118381--118437	17	3.3	16	80	9	60	47	8	0	43	1.34
119313--119377	32	2.0	31	82	5	76	55	1	0	43	1.09
119378--119422	23	2.0	23	86	0	63	57	0	0	42	0.98
120025--120086	6	10.7	6	74	19	51	32	0	0	67	0.91
120024--120086	24	2.7	23	76	13	67	31	0	0	68	0.90
120700--120775	37	2.1	37	100	0	152	46	18	7	27	1.77
123536--123764	115	2.0	115	92	0	377	32	13	9	44	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21