genome.fa.s37.2.7.7.80.10.50.1000.1.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: Scaffold37
Parameters: 2 7 7 80 10 50 1000
Length:  836391

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 678 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)
2039--2084	23	2.0	23	100	0	92	56	17	4	21	1.58
2198--2242	16	2.5	19	76	23	53	40	2	0	57	1.11
3003--3032	14	2.1	14	93	0	51	53	6	0	40	1.27
6176--6286	58	1.9	58	96	0	204	27	13	20	37	1.91
17525--17590	32	2.0	33	85	2	89	43	1	0	54	1.09
17548--17601	29	2.0	26	85	10	72	40	0	0	59	0.98
18931--18958	12	2.3	12	100	0	56	78	0	0	21	0.75
18928--18966	11	3.5	11	86	10	53	76	0	2	20	0.90
19281--19328	20	2.3	21	89	7	71	39	0	4	56	1.19
19524--19581	20	3.1	19	85	9	75	70	0	0	29	0.87
19531--19596	20	3.2	20	70	25	57	69	0	0	30	0.88
20576--20630	24	2.5	23	80	16	64	58	3	9	29	1.46
21611--21646	18	2.0	18	89	10	56	66	0	0	33	0.92
21802--21838	9	3.9	10	79	13	51	40	0	0	59	0.97
21801--21848	22	2.3	21	80	19	64	39	0	0	60	0.97
21803--21844	22	1.9	23	90	9	70	40	0	0	59	0.97
22379--22427	20	2.5	20	82	0	53	20	6	4	69	1.27
22823--22920	39	2.5	40	80	8	105	55	2	5	37	1.34
23601--23692	37	2.6	36	75	13	93	43	0	1	55	1.07
23637--23687	16	3.3	16	81	5	52	39	0	0	60	0.97
25456--25513	23	2.4	23	80	8	62	55	0	5	39	1.22
26008--26072	32	1.9	32	81	12	76	50	0	1	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27281--27323	15	2.9	15	80	13	52	58	0	0	41	0.98
27814--27844	4	7.8	4	100	0	62	51	22	0	25	1.48
28715--28747	12	2.9	12	91	8	52	0	9	0	90	0.44
36973--37003	3	10.3	3	100	0	62	32	0	0	67	0.91
37423--37493	32	2.1	33	85	12	92	59	5	5	29	1.44
37900--37925	2	13.0	2	100	0	52	50	0	0	50	1.00
38629--38657	3	9.7	3	100	0	58	68	0	31	0	0.89
47629--47702	36	2.1	35	82	5	85	48	6	2	41	1.44
47642--47702	17	3.4	17	76	19	61	47	6	3	42	1.45
47642--47706	19	3.5	19	73	23	66	49	6	3	41	1.43
48607--48642	14	2.6	13	87	12	54	88	0	8	2	0.59
48608--48643	18	2.0	18	94	0	63	86	0	8	5	0.72
48648--48711	21	3.1	21	80	10	62	34	0	0	65	0.93
49211--49255	12	3.9	12	80	16	51	24	0	6	68	1.13
49210--49265	20	2.8	19	76	23	69	23	0	5	71	1.06
49607--49655	21	2.5	19	78	12	55	46	0	0	53	1.00
49622--49673	21	2.5	22	81	6	54	59	1	0	38	1.08
49858--49899	16	2.5	18	74	18	54	40	2	0	57	1.12
50053--50085	3	11.0	3	100	0	66	66	0	0	33	0.92
60948--60989	21	2.0	21	85	0	57	54	0	2	42	1.13
64164--64293	8	14.9	8	71	24	54	41	0	0	57	1.04
64173--64221	22	2.2	22	85	0	62	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
64165--64289	32	3.8	32	77	18	100	41	0	0	57	1.04
64165--64220	16	3.6	16	75	15	64	37	0	0	62	0.95
64194--64261	16	4.2	17	74	20	65	42	0	0	57	0.98
64166--64284	33	3.6	33	76	17	106	42	0	0	57	0.98
64347--64387	3	14.0	3	89	5	66	34	2	0	63	1.08
64600--64637	3	12.7	3	100	0	76	31	0	0	68	0.90
65022--65068	2	23.5	2	100	0	94	51	0	0	48	1.00
65885--65912	14	2.0	14	100	0	56	50	0	0	50	1.00
67318--67374	21	2.7	21	75	2	60	52	1	1	43	1.21
67979--68021	2	21.5	2	95	0	77	48	2	0	48	1.14
69321--69401	25	3.5	23	72	18	69	46	0	1	51	1.08
69385--69490	49	2.3	45	80	11	117	51	4	0	42	1.29
69423--69487	22	2.9	22	75	6	60	49	4	0	46	1.22
70071--70104	18	1.9	17	88	5	50	52	2	0	44	1.16
70524--70556	2	16.5	2	100	0	66	48	0	0	51	1.00
71107--71162	21	2.7	21	81	13	71	57	0	0	42	0.99
72345--72421	38	2.1	38	85	4	104	38	5	5	50	1.47
77887--77913	11	2.5	11	100	0	54	44	0	11	44	1.39
78345--78374	14	2.1	14	100	0	60	46	0	0	53	1.00
79690--79736	13	3.6	13	85	0	67	31	6	42	19	1.76
79678--79736	26	2.3	26	79	5	66	35	6	40	16	1.76
79821--79893	27	2.7	27	84	0	92	47	19	8	24	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
84276--84321	13	3.5	13	81	0	56	36	6	36	19	1.78
84375--84478	24	4.1	24	67	24	61	46	22	9	22	1.80
84377--84479	27	3.9	27	78	3	95	45	22	9	22	1.81
89137--89184	22	2.2	22	100	0	96	52	0	8	39	1.32
89469--89513	7	6.3	7	80	14	56	24	0	2	73	0.95
91483--91519	2	18.5	2	100	0	74	48	0	0	51	1.00
96754--96847	27	3.6	25	75	19	84	24	7	22	45	1.78
97621--97656	12	3.2	12	81	18	51	36	0	0	63	0.94
97621--97673	21	2.5	22	81	12	65	33	1	0	64	1.05
97669--97716	23	2.0	24	88	11	73	47	4	0	47	1.21
97684--97752	35	2.0	35	82	0	84	40	1	1	56	1.17
99272--99305	14	2.4	14	90	0	50	23	0	5	70	1.09
99300--99331	17	1.9	17	93	6	57	50	0	0	50	1.00
99401--99468	25	2.8	25	80	6	77	50	1	2	45	1.26
100646--100686	21	1.9	21	85	5	55	48	7	0	43	1.30
102648--102755	53	2.0	53	94	0	189	29	11	21	37	1.88
106082--106133	22	2.2	25	83	13	74	50	1	1	46	1.23
106922--106954	8	4.2	8	88	7	50	24	0	0	75	0.80
106919--106955	15	2.5	15	86	0	56	27	0	0	72	0.84
108190--108230	18	2.3	18	86	0	55	46	7	7	39	1.60
108242--108287	24	1.9	24	86	8	67	65	0	0	34	0.93
108263--108311	17	2.7	18	81	18	57	55	0	0	44	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
108697--108850	19	7.5	21	69	22	78	40	2	0	56	1.13
108742--108803	17	3.6	17	79	10	65	40	0	0	59	0.97
108742--108829	34	2.5	34	77	18	92	37	1	0	61	1.04
108769--108840	6	12.8	6	69	24	50	34	2	0	62	1.10
108780--108838	11	5.9	10	78	11	59	32	3	0	64	1.10
109040--109078	20	2.0	20	90	5	62	56	0	0	43	0.99
109130--109170	19	2.2	19	91	8	66	31	0	2	65	1.05
109134--109182	19	2.5	20	83	3	64	36	2	2	59	1.21
110076--110117	17	2.5	17	92	0	66	66	0	0	33	0.92
110578--110619	21	2.1	19	86	13	57	59	0	0	40	0.97
110997--111036	19	2.0	20	85	4	55	70	2	0	27	1.01
111874--111901	2	14.0	2	100	0	56	50	0	0	50	1.00
112448--112498	24	2.2	23	85	3	66	58	7	3	29	1.44
113374--113418	23	1.9	24	86	4	65	40	4	6	48	1.49
115061--115102	18	2.3	18	84	8	50	54	2	0	42	1.13
115085--115156	31	2.2	32	80	9	85	51	0	0	48	1.00
117677--117705	2	14.5	2	100	0	58	51	0	0	48	1.00
118721--118896	90	2.0	90	97	0	334	39	23	15	21	1.91
122806--122839	16	2.2	15	89	5	50	50	0	0	50	1.00
125240--125282	15	2.9	15	79	6	52	44	0	0	55	0.99
125294--125327	12	2.8	12	90	4	50	52	2	0	44	1.16
129814--129864	2	25.5	2	95	0	93	47	0	1	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
136408--136498	28	3.2	28	72	21	91	59	0	0	40	0.97
136400--136494	33	2.8	33	78	7	86	57	0	0	42	0.98
136419--136519	29	3.6	29	76	11	102	63	0	0	35	1.01
141985--142011	2	13.5	2	100	0	54	51	0	0	48	1.00
142276--142317	20	2.1	20	86	8	59	38	0	0	61	0.96
144097--144143	16	2.9	17	76	23	64	44	0	0	55	0.99
144087--144164	32	2.4	32	82	2	93	42	2	1	53	1.22
146832--146897	16	4.2	16	74	14	66	53	0	0	46	1.00
146832--146922	15	5.9	16	72	21	61	57	0	0	42	0.99
146895--146934	16	2.5	16	88	8	55	72	0	0	27	0.85

Tables:   1   2   3   4   5   6