genome.fa.s423.2.7.7.80.10.50.1000.1.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: Scaffold423
Parameters: 2 7 7 80 10 50 1000
Length:  617052

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 618 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)
1613--1646	15	2.3	15	94	0	59	38	32	5	23	1.79
4867--4912	16	2.8	17	80	6	58	63	2	2	32	1.19
6023--6058	18	2.1	18	90	10	58	61	0	0	38	0.96
7883--8023	69	2.0	69	100	0	282	35	9	7	47	1.64
8008--8044	2	18.5	2	100	0	74	48	0	0	51	1.00
8145--8169	13	1.9	13	100	0	50	72	0	0	28	0.86
10654--10707	17	3.3	17	72	23	53	57	3	0	38	1.17
10724--10763	20	2.0	20	95	0	71	50	12	10	27	1.72
18543--18589	20	2.3	21	79	13	55	36	0	0	63	0.94
23966--24024	22	3.0	20	68	22	52	45	0	5	49	1.24
23966--24045	41	2.0	40	82	7	99	50	0	3	46	1.19
24128--24180	23	2.2	25	80	6	65	47	0	0	52	1.00
24383--24426	2	23.0	2	90	9	74	50	0	0	50	1.00
24534--24563	16	1.9	15	93	6	51	43	6	10	40	1.64
24707--24758	20	2.5	20	81	12	61	55	1	0	42	1.10
24734--24777	14	3.2	13	84	9	52	50	0	0	50	1.00
24722--24768	19	2.5	19	82	6	60	53	0	0	46	1.00
24816--24895	35	2.3	35	89	4	119	28	3	1	66	1.17
25127--25318	77	2.5	75	82	6	226	29	27	10	32	1.91
25405--25444	14	2.9	14	85	7	55	67	0	0	32	0.91
34010--34057	25	2.0	26	84	12	66	54	0	0	45	0.99
34010--34057	24	2.0	25	87	4	71	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
34762--34813	21	2.5	21	81	6	61	46	0	1	51	1.12
35856--35905	20	2.5	20	87	6	66	48	0	0	52	1.00
36736--36777	22	2.0	21	85	4	57	42	0	0	57	0.99
37787--37824	12	3.2	12	81	11	51	34	0	0	65	0.93
37766--37815	21	2.3	22	86	3	66	34	2	2	62	1.18
37766--37886	14	8.1	16	64	18	64	42	0	0	56	1.11
37839--37890	15	3.3	17	74	15	58	40	0	0	59	0.97
37911--37957	25	1.9	25	91	4	78	31	0	0	68	0.90
38059--38118	16	3.9	16	82	8	79	40	0	0	60	0.97
38336--38379	23	2.0	22	86	13	63	52	0	0	47	1.00
38804--38846	21	2.0	20	86	8	59	39	0	0	60	0.97
38997--39073	28	2.7	28	86	8	93	36	2	1	59	1.19
39497--39539	18	2.3	19	84	11	54	51	4	0	44	1.22
40023--40065	20	2.2	20	83	4	52	44	6	4	44	1.52
43395--43470	20	3.6	21	77	13	68	39	5	11	43	1.64
43816--43850	5	6.6	5	90	9	52	54	0	0	45	0.99
43816--43850	16	2.2	16	90	10	54	54	0	0	45	0.99
44371--44412	13	3.4	13	74	12	52	47	0	0	52	1.00
44347--44418	24	3.1	24	80	15	89	44	0	0	55	0.99
44750--44775	2	13.0	2	100	0	52	50	0	0	50	1.00
45816--45868	16	3.2	16	75	21	56	43	0	1	54	1.11
45810--45893	33	2.5	33	79	12	91	44	1	3	51	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47848--47889	21	2.0	20	82	13	50	40	2	0	57	1.12
48983--49038	23	2.4	22	82	8	58	64	1	0	33	1.04
50133--50161	3	10.0	3	92	7	51	68	0	0	31	0.89
50228--50268	14	2.9	14	85	3	55	17	0	2	80	0.82
52011--52046	18	2.1	17	89	5	54	69	0	0	30	0.89
52078--52147	19	3.6	21	66	26	55	54	0	2	42	1.15
52114--52163	18	2.9	18	82	5	59	52	0	8	40	1.31
52616--52660	23	2.0	23	86	0	63	40	4	17	37	1.70
52682--52738	26	2.2	26	81	9	64	66	0	3	29	1.08
52682--52757	40	2.0	39	87	7	111	65	0	3	30	1.10
52676--52875	60	3.4	59	71	21	157	58	0	3	37	1.19
53072--53131	23	2.7	22	82	12	70	55	0	0	45	0.99
54723--54775	28	1.9	28	88	3	81	56	11	3	28	1.51
55576--55658	24	3.3	25	69	21	75	54	0	1	44	1.08
55555--55661	50	2.1	49	85	10	137	56	0	1	42	1.10
55579--55693	52	2.2	54	86	10	175	55	0	0	42	1.11
56147--56189	10	4.6	9	85	8	50	46	0	0	53	1.00
56147--56199	19	2.7	19	80	8	54	43	1	0	54	1.11
56442--56528	21	4.2	21	70	11	54	45	1	1	51	1.16
56516--56540	12	2.1	12	100	0	50	48	0	0	52	1.00
56533--56590	11	5.4	11	79	10	66	31	1	0	67	1.01
56521--56590	17	4.2	17	71	21	51	34	1	0	64	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
56536--56590	21	2.5	22	88	8	78	29	1	0	69	0.99
58748--58779	2	16.0	2	100	0	64	50	0	0	50	1.00
59784--59814	16	2.0	15	93	6	53	83	0	0	16	0.64
61082--61117	2	18.0	2	88	0	54	44	0	2	52	1.15
61683--61724	20	2.1	20	90	0	66	45	0	0	54	0.99
62648--62679	3	10.7	3	100	0	64	34	0	0	65	0.93
64012--64043	3	10.7	3	100	0	64	65	0	0	34	0.93
69018--69076	24	2.4	24	83	8	66	45	0	0	54	0.99
69746--69786	22	1.9	21	90	5	64	34	0	0	65	0.93
70028--70093	8	8.6	8	74	15	59	33	0	3	63	1.10
70029--70088	14	4.1	14	72	12	50	31	0	3	65	1.09
70030--70103	23	3.3	23	85	7	91	35	0	2	62	1.10
70966--71023	28	2.2	26	84	6	71	1	43	0	55	1.10
76605--76785	90	2.0	90	100	0	362	30	18	18	32	1.95
77880--77928	15	3.3	15	76	21	50	51	2	2	44	1.24
78551--78649	48	2.0	49	83	9	123	61	5	0	33	1.18
78609--78654	16	2.8	16	86	3	65	60	2	0	36	1.09
83863--83902	20	2.0	21	85	9	57	52	0	0	47	1.00
84419--84472	15	3.2	17	72	27	53	44	1	3	50	1.30
85507--85539	2	16.5	2	100	0	66	0	48	0	51	1.00
85539--85567	2	14.5	2	100	0	58	48	0	0	51	1.00
85745--85778	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94514--94566	25	2.0	28	85	10	76	45	0	0	54	0.99
94918--94959	21	2.0	21	90	9	68	54	0	0	45	0.99
94908--94969	21	2.6	24	70	21	58	51	0	0	48	1.00
95542--95992	157	2.9	151	81	10	459	29	26	20	23	1.99
98422--98449	2	14.0	2	100	0	56	0	0	50	50	1.00
99364--99436	13	5.8	13	69	24	50	65	0	1	32	1.01
99360--99428	22	2.9	26	73	20	78	65	0	2	31	1.08
102490--102518	2	14.5	2	100	0	58	48	0	0	51	1.00
103942--104003	28	2.2	29	79	2	72	58	8	6	27	1.52
104058--104103	2	23.0	2	100	0	92	50	0	0	50	1.00
104179--104240	32	1.9	32	87	9	90	54	0	9	35	1.33
111026--111068	2	21.5	2	90	0	68	44	0	4	51	1.22
111598--111665	24	2.8	25	77	18	72	66	0	1	32	1.01
111607--111662	13	4.8	11	81	16	51	64	0	1	33	1.04
111623--111662	13	3.2	12	86	13	55	62	0	2	35	1.09
111607--111665	25	2.5	23	79	17	68	64	0	1	33	1.04
111647--111745	41	2.4	41	79	12	107	56	1	1	41	1.13
113951--113991	22	1.9	21	85	14	57	58	2	0	39	1.11
115573--115622	23	2.2	22	79	6	55	34	8	10	48	1.66
115892--115931	2	20.0	2	100	0	80	50	0	0	50	1.00
116027--116079	23	2.4	22	81	12	63	67	0	0	32	0.91
117078--117106	12	2.3	13	94	5	51	72	0	3	24	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
118643--118669	2	13.5	2	100	0	54	48	0	0	51	1.00
120684--120717	17	1.9	18	88	5	52	50	2	0	47	1.16
121877--121931	14	3.5	14	74	25	56	41	1	0	56	1.10
121879--121936	16	3.5	16	73	17	64	41	1	0	56	1.09
121881--121955	20	4.1	20	70	26	67	40	1	0	58	1.06
121915--121959	22	2.2	20	84	8	54	37	0	0	62	0.96
121912--122002	44	2.1	43	82	12	105	35	1	0	63	1.02
121924--121993	12	6.0	12	69	17	58	34	1	0	64	1.03
121933--122011	21	3.6	21	75	11	70	32	2	0	64	1.07
121974--122017	21	2.1	21	86	0	61	36	4	0	59	1.18

Tables:   1   2   3   4   5   6