genome.fa.s553.2.7.7.80.10.50.1000.1.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: Scaffold553
Parameters: 2 7 7 80 10 50 1000
Length:  449280

Tables:   1   2   3   4   

This is table  1  of  4  ( 386 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)
951--998	21	2.5	19	78	15	53	47	0	4	47	1.21
2741--2776	13	2.9	12	84	8	54	47	0	0	52	1.00
3825--3873	21	2.3	21	86	10	64	51	0	0	48	1.00
4486--4579	42	2.2	42	83	7	111	48	1	0	50	1.07
4811--4900	32	2.7	32	82	8	90	58	4	0	36	1.18
4845--4905	32	1.9	32	89	0	95	57	0	0	42	0.98
4888--4961	28	2.7	28	81	8	82	58	4	1	36	1.26
5767--5799	15	2.2	15	89	10	50	36	0	0	63	0.95
5904--5991	16	5.7	16	68	16	60	46	0	1	52	1.08
5954--6050	29	3.5	30	77	16	100	51	1	0	47	1.07
6314--6369	27	2.0	28	86	3	78	58	0	3	37	1.15
6321--6368	16	3.3	16	72	24	52	60	0	0	39	0.97
6353--6391	20	2.0	20	90	10	62	56	0	0	43	0.99
6321--6392	27	2.6	27	82	6	81	59	0	0	40	0.97
12643--12696	16	3.2	18	87	10	62	37	0	0	62	0.95
12652--12716	16	4.1	16	88	4	87	38	0	0	61	0.96
23236--23260	2	12.5	2	100	0	50	48	0	0	52	1.00
26658--26690	7	4.7	7	100	0	66	27	15	0	57	1.38
31732--31756	13	1.9	13	100	0	50	28	48	8	16	1.74
33466--33495	15	1.9	15	93	6	51	80	0	0	20	0.72
35693--35736	11	3.9	11	79	5	52	63	2	2	31	1.19
36092--36141	20	2.5	21	83	9	68	48	0	2	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36174--36238	30	2.2	30	83	5	78	56	0	0	43	0.99
36210--36256	17	2.8	16	83	9	58	53	2	0	44	1.12
39247--39292	17	2.8	17	83	3	58	41	10	6	41	1.66
39350--39388	17	2.4	17	91	4	62	43	15	0	41	1.46
42769--42845	38	2.0	38	100	0	154	50	12	5	31	1.63
43907--43948	15	2.9	15	75	10	52	61	2	2	33	1.21
43795--44013	114	1.9	115	84	6	293	45	5	5	42	1.52
44457--44486	2	15.0	2	100	0	60	50	0	0	50	1.00
45126--45151	3	8.7	3	100	0	52	30	0	0	69	0.89
45609--45651	19	2.3	19	84	8	52	60	4	2	32	1.30
49430--49466	2	18.5	2	94	0	65	48	2	0	48	1.15
51504--51552	19	2.6	20	81	18	61	69	4	0	26	1.06
53454--53503	24	2.1	24	100	0	100	24	26	16	34	1.95
61979--62020	14	3.1	14	75	3	50	59	0	0	40	0.97
62283--62321	18	2.1	18	85	4	51	74	0	5	20	1.01
62754--62783	16	1.9	15	93	6	51	36	6	3	53	1.44
63511--63602	48	1.9	48	80	10	109	52	1	1	45	1.15
63886--63919	11	3.0	12	83	16	54	67	0	0	32	0.91
63928--63966	19	2.1	19	85	9	53	56	7	0	35	1.28
64592--64648	24	2.4	24	82	8	64	38	0	5	56	1.22
67083--67148	21	3.2	20	77	14	64	46	0	0	53	1.00
67811--67868	23	2.6	23	86	8	75	32	3	0	63	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
68025--68078	3	18.0	3	96	0	99	33	1	0	64	1.04
68173--68214	13	3.1	14	80	16	52	45	7	2	45	1.44
68375--68413	2	19.5	2	94	0	69	46	0	0	53	1.00
69479--69509	14	2.2	14	94	0	53	58	9	0	32	1.31
70194--70240	23	2.0	23	83	0	58	53	12	17	17	1.73
74102--74134	17	1.9	17	100	0	66	60	12	21	6	1.53
80695--80732	20	1.9	20	84	10	51	60	0	0	39	0.97
80931--80956	6	4.3	6	100	0	52	69	0	0	30	0.89
80933--80998	26	2.4	28	75	14	75	60	0	0	39	0.97
80979--81011	16	2.1	16	88	5	50	66	0	0	33	0.92
81079--81170	40	2.3	40	82	10	118	47	2	3	46	1.30
82584--82914	74	4.6	73	75	10	254	32	2	12	52	1.51
82602--82914	147	2.2	142	79	8	339	32	2	12	52	1.51
83915--86142	506	4.4	506	90	2	3255	39	12	7	39	1.72
85862--85907	23	2.0	23	83	12	58	45	2	2	50	1.26
86140--86189	23	2.1	24	85	10	68	60	4	0	36	1.16
86498--86531	15	2.3	15	89	0	50	38	0	0	61	0.96
86546--86591	19	2.3	20	85	3	67	34	0	0	65	0.93
86560--86614	24	2.3	24	81	6	67	40	0	0	60	0.97
86527--86668	70	2.0	70	85	4	189	40	1	0	57	1.12
86782--86826	14	3.3	13	84	6	54	57	2	0	40	1.11
86782--86815	13	2.5	13	90	4	50	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
87025--87085	18	3.2	18	81	6	68	60	0	1	37	1.07
87025--87082	19	3.1	18	87	5	71	60	0	1	37	1.07
87036--87085	18	2.7	20	81	15	70	62	0	2	36	1.07
95060--95084	2	12.5	2	100	0	50	0	0	48	52	1.00
98176--98216	2	20.5	2	100	0	82	48	0	0	51	1.00
98614--98645	7	4.6	7	96	0	55	25	0	0	75	0.81
99040--99108	26	2.6	26	83	4	84	39	1	4	55	1.29
99217--99263	19	2.6	17	80	9	51	63	2	2	31	1.18
101960--102005	23	2.0	23	86	4	65	10	34	6	47	1.64
103772--103813	14	3.2	14	87	12	63	40	0	0	59	0.97
103818--103856	20	1.9	21	89	5	62	51	2	0	46	1.14
103998--104041	14	2.9	15	78	18	54	45	0	0	54	0.99
110386--110467	23	3.5	23	82	12	96	43	0	1	54	1.07
110419--110462	11	3.9	11	79	5	52	36	0	0	63	0.95
110402--110468	23	2.8	24	88	6	100	40	0	0	59	0.97
110969--111005	3	12.3	3	94	0	65	32	2	0	64	1.07
114580--114625	18	2.6	18	86	6	58	34	30	4	30	1.77
114613--114655	15	2.9	15	96	0	77	32	27	2	37	1.70
116362--116410	19	2.6	18	77	6	53	67	2	2	28	1.13
116408--116462	20	2.8	20	76	17	53	27	0	1	70	0.97
116561--116603	21	2.0	21	82	8	52	48	0	0	51	1.00
116590--116623	17	2.0	17	88	0	50	58	2	2	35	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
116843--116881	19	2.0	21	85	10	55	64	5	5	25	1.35
116887--116943	18	3.3	18	72	15	50	50	1	0	47	1.11
117142--117204	28	2.2	29	82	2	74	47	0	0	52	1.00
117752--117855	25	3.9	27	72	17	76	50	0	0	48	1.07
117775--117855	12	7.5	11	77	14	53	51	0	1	46	1.08
117823--117855	2	16.5	2	100	0	66	48	0	0	51	1.00
118173--118213	20	2.0	20	85	4	55	68	0	0	31	0.90
119041--119085	21	2.0	21	87	8	63	44	2	2	51	1.26
119076--119124	2	24.5	2	85	0	62	51	2	0	46	1.12
119475--119499	3	8.3	3	100	0	50	32	0	0	68	0.90
121211--121239	13	2.2	13	100	0	58	34	20	6	37	1.80
122839--122887	14	3.4	14	80	8	53	38	0	0	61	0.96
122866--122896	7	4.6	7	92	8	55	32	0	0	67	0.91
122866--122896	13	2.3	14	94	5	55	32	0	0	67	0.91
123346--123418	31	2.2	34	80	9	89	46	0	0	53	1.00
123376--123435	20	2.9	21	75	7	61	41	0	0	58	0.98
129319--129366	24	2.0	24	95	0	87	39	14	0	45	1.45
129684--129775	32	2.8	33	70	14	84	51	0	0	48	1.00
130349--130463	32	3.3	33	77	13	106	53	0	0	44	1.12
130364--130416	17	3.2	17	76	23	60	54	0	0	45	0.99
130535--130577	13	3.2	13	81	18	52	48	0	0	51	1.00
137793--137839	22	2.1	22	84	7	60	65	2	2	29	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
139708--139741	18	1.9	17	88	5	50	55	0	0	44	0.99
140330--140485	5	32.0	5	64	19	55	58	0	2	37	1.16
140321--140485	11	15.2	11	65	25	68	58	0	2	38	1.16
140336--140392	24	2.2	27	81	9	75	63	0	1	35	1.05
140323--140454	19	7.1	19	69	22	75	60	0	1	37	1.11
140367--140485	32	3.4	34	75	16	95	58	0	1	38	1.14
140321--140450	17	7.6	17	70	24	71	60	0	1	37	1.12
140384--140461	40	1.9	40	84	5	102	58	1	0	39	1.06
140422--140463	16	2.5	17	80	7	50	59	0	0	40	0.97
140353--140485	70	1.9	70	80	14	159	60	0	1	37	1.12

Tables:   1   2   3   4