genome.fa.s443.2.7.7.80.10.50.1000.1.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: Scaffold443
Parameters: 2 7 7 80 10 50 1000
Length:  318098

Tables:   1   2   3   

This is table  1  of  3  ( 291 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)
1858--2515	173	3.9	161	75	12	532	32	20	18	29	1.96
8488--8533	19	2.4	19	81	0	65	43	0	0	56	0.99
8519--8560	14	3.0	14	82	0	57	47	0	0	52	1.00
8573--8603	16	1.9	16	93	0	53	61	0	0	38	0.96
8592--8628	15	2.5	15	91	4	58	70	0	0	29	0.88
9703--9756	25	2.2	24	86	3	72	44	0	0	55	0.99
9740--9823	6	15.3	6	74	16	51	51	2	0	46	1.14
9714--9773	15	3.9	15	68	12	50	43	0	0	56	0.99
9714--9777	24	2.8	24	73	4	69	45	0	0	54	0.99
10882--10917	18	2.1	17	90	10	56	72	2	2	22	1.11
13035--13092	21	2.8	21	75	0	62	46	5	10	37	1.60
14056--14085	2	15.0	2	92	0	51	46	0	3	50	1.18
15424--15477	23	2.4	21	77	22	56	53	0	0	46	1.00
16060--16106	17	2.8	16	81	12	58	36	2	0	61	1.08
16024--16128	27	3.8	28	70	16	67	40	1	0	58	1.09
16069--16112	16	2.6	17	82	13	56	36	2	0	61	1.09
16048--16127	22	3.6	22	77	9	83	36	2	0	61	1.10
16405--16468	26	2.3	29	81	7	80	53	0	0	46	1.00
16443--16484	21	2.0	21	86	13	59	57	0	0	42	0.99
19326--19404	22	3.5	21	81	10	77	3	15	1	79	0.93
19329--19404	24	3.3	22	76	18	75	2	15	1	80	0.90
19329--19403	11	6.6	11	71	14	55	2	16	1	80	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
19716--19740	10	2.5	10	100	0	50	68	0	0	32	0.90
19731--19784	24	2.2	24	83	6	65	66	3	0	29	1.09
19982--20296	167	1.9	166	80	8	376	49	8	11	30	1.69
20750--20817	19	3.9	19	74	21	76	35	10	14	39	1.80
20752--20814	32	2.0	32	93	0	108	34	11	15	38	1.83
20857--20882	13	2.0	13	100	0	52	30	15	15	38	1.88
20837--20899	33	1.9	33	86	0	90	25	14	17	42	1.87
23217--23347	50	2.5	54	79	12	155	32	25	9	32	1.87
23331--23408	27	2.9	27	92	0	129	26	29	19	24	1.98
23416--23638	104	2.1	104	83	3	270	29	25	12	33	1.92
23416--23638	53	4.3	52	82	5	236	29	25	12	33	1.92
23621--23697	28	2.8	28	85	0	91	23	35	19	22	1.96
23731--23785	28	1.9	29	88	3	85	20	23	20	36	1.95
23651--23884	78	3.0	78	78	6	247	25	27	14	32	1.95
26682--26813	52	2.5	52	84	6	178	30	25	9	34	1.88
26796--26872	28	2.8	28	85	0	100	23	32	19	24	1.97
26826--27026	77	2.6	77	81	5	217	24	29	16	28	1.97
28598--28643	19	2.3	21	85	7	60	60	2	0	36	1.09
28786--28817	10	3.2	10	100	0	64	68	0	9	21	1.17
30063--30106	17	2.5	18	88	3	63	31	0	0	68	0.90
30062--30106	18	2.5	19	82	10	58	31	0	0	68	0.89
47640--47697	28	2.1	28	93	0	98	31	13	10	44	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
52687--52745	11	5.0	12	74	10	50	66	0	0	33	0.92
52687--52745	25	2.5	25	83	8	70	66	0	0	33	0.92
52764--52837	32	2.3	31	80	13	87	47	0	1	51	1.09
52785--52840	16	3.4	17	79	20	73	48	0	0	51	1.00
52785--52840	18	3.3	18	75	25	68	48	0	0	51	1.00
52780--52853	32	2.3	32	82	17	91	47	1	0	51	1.09
52799--52875	26	2.9	27	73	19	65	50	2	0	46	1.15
52842--52997	25	6.0	25	67	18	77	52	3	0	44	1.17
52830--52977	80	1.9	78	95	2	269	54	3	0	42	1.17
53662--53707	21	2.0	24	88	12	71	45	2	2	50	1.26
55047--55092	23	2.0	23	83	8	58	39	0	2	58	1.10
55115--55152	19	2.0	19	85	10	51	50	0	0	50	1.00
55204--55252	25	2.0	25	88	8	73	42	4	2	51	1.32
55292--55380	20	4.6	19	71	23	71	42	0	1	56	1.06
55319--55383	25	2.6	25	72	15	64	46	0	0	53	1.00
63861--63916	15	3.3	16	75	20	60	58	0	0	41	0.98
63872--63900	11	2.7	11	94	5	51	62	0	0	37	0.96
63949--63991	20	2.0	20	86	8	59	41	0	0	58	0.98
66292--66323	11	2.9	11	95	0	55	59	0	0	40	0.97
66779--66825	12	4.1	12	76	20	55	27	6	6	59	1.46
66788--66831	20	2.1	22	87	8	65	25	4	6	63	1.38
68535--68575	15	2.5	17	76	19	50	65	0	2	31	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68556--68633	31	2.5	32	74	15	83	60	0	0	39	0.97
69367--69433	24	2.8	25	85	12	81	52	4	1	41	1.31
69547--69585	17	2.1	17	86	13	51	46	0	2	51	1.14
73122--73189	21	3.3	21	68	15	70	20	13	14	51	1.76
73121--73203	40	2.1	39	97	2	157	19	15	13	51	1.75
74890--74946	20	2.8	21	74	15	64	61	0	0	38	0.96
75427--75480	12	4.2	13	71	19	51	48	0	0	51	1.00
75439--75492	26	2.1	25	86	13	74	50	0	1	48	1.11
78708--78748	2	20.5	2	100	0	82	48	0	0	51	1.00
80712--80759	12	3.8	14	74	20	52	41	0	0	58	0.98
82453--82529	28	2.7	26	78	15	66	53	0	3	42	1.19
84449--84570	17	6.7	18	65	25	62	40	0	0	59	1.03
84461--84513	28	1.9	28	85	11	74	45	0	0	54	0.99
89798--89838	19	2.2	19	83	12	50	19	2	4	73	1.13
90560--90590	16	1.9	16	93	0	53	19	6	19	54	1.65
90794--90846	16	3.3	16	71	10	54	30	3	11	54	1.53
92474--92559	24	3.8	24	72	9	67	43	0	1	55	1.07
92474--92559	23	3.8	23	70	14	72	43	0	1	55	1.07
92492--92578	44	2.0	44	84	8	115	45	0	2	51	1.13
92532--92615	19	4.2	20	73	11	66	40	1	3	54	1.25
92585--92636	6	8.5	6	75	12	52	42	1	1	53	1.23
93430--93472	2	21.5	2	95	0	77	48	2	0	48	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
93919--94021	51	2.0	51	100	0	206	26	13	11	48	1.77
93934--94017	26	3.3	26	64	26	70	25	13	9	52	1.70
95405--95433	12	2.5	12	94	5	51	34	6	6	51	1.55
95710--95760	15	3.3	16	81	8	61	39	0	0	60	0.97
95731--95772	15	2.8	15	85	0	57	45	2	0	52	1.13
95734--95777	15	2.9	15	82	0	52	47	2	0	50	1.13
96684--96721	6	6.7	6	87	6	53	42	0	2	55	1.14
96672--96721	11	4.5	11	78	14	57	40	0	2	58	1.10
97182--97234	22	2.5	21	84	9	72	45	0	0	54	0.99
97749--97775	2	13.5	2	100	0	54	51	0	0	48	1.00
99008--99349	178	1.9	176	80	9	394	42	5	8	43	1.56
100454--100566	22	5.0	21	73	15	77	53	0	1	44	1.10
100455--100563	16	7.3	15	68	20	59	54	0	1	44	1.11
100494--100579	44	1.9	45	86	9	122	51	0	2	46	1.13
100814--100854	19	2.3	17	87	8	55	43	0	0	56	0.99
100815--100890	31	2.4	32	76	12	77	38	0	0	61	0.96
100826--100886	10	6.1	10	74	14	63	34	0	0	65	0.93
100965--101013	17	2.9	16	79	11	53	53	0	0	46	1.00
100965--101028	21	3.0	23	78	17	66	54	0	0	45	0.99
107956--107995	21	2.0	20	85	5	53	47	5	7	40	1.54
108175--108222	25	2.0	24	83	4	60	45	2	0	52	1.12
108200--108241	21	2.1	19	83	16	50	42	4	0	52	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108923--108977	12	4.4	12	84	8	65	32	0	3	63	1.12
111071--111112	4	10.5	4	100	0	84	50	26	0	23	1.50
111599--111627	12	2.5	12	94	5	51	34	6	6	51	1.55
111904--111954	15	3.3	16	81	8	61	39	0	0	60	0.97
111925--111966	15	2.8	15	85	0	57	45	2	0	52	1.13
111928--111971	15	2.9	15	82	0	52	47	2	0	50	1.13
113372--113424	22	2.5	21	84	9	72	45	0	0	54	0.99
115976--116020	22	2.0	22	91	0	72	31	0	0	68	0.89
122211--122273	32	1.9	33	87	9	94	25	3	15	55	1.55
122230--122273	16	2.6	17	82	7	63	25	2	15	56	1.51

Tables:   1   2   3