genome.fa.s81.2.7.7.80.10.50.1000.1.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: Scaffold81
Parameters: 2 7 7 80 10 50 1000
Length:  1151237

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1060 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)
939--1000	25	2.4	25	75	20	65	43	0	1	54	1.09
1056--1098	20	2.1	21	86	4	61	55	2	0	41	1.12
2388--2480	8	11.1	8	73	17	55	56	3	0	39	1.15
2447--2477	2	15.5	2	100	0	62	51	0	0	48	1.00
2950--3004	27	2.0	27	100	0	110	41	21	7	29	1.80
2997--3026	14	2.2	14	94	5	53	43	0	0	56	0.99
3090--3128	17	2.3	17	95	0	69	33	0	0	66	0.92
14206--14247	2	21.0	2	100	0	84	50	0	0	50	1.00
15802--15859	30	2.0	29	86	3	80	77	3	0	18	0.91
16202--16228	1	27.0	1	100	0	54	0	0	0	100	0.00
16873--16941	34	2.0	34	83	10	88	40	0	0	59	0.97
16867--16944	33	2.4	32	81	14	88	42	0	0	57	0.98
17656--17686	2	15.5	2	100	0	62	51	0	0	48	1.00
18680--19113	152	2.9	146	84	9	498	55	5	14	23	1.61
18728--19113	140	2.7	144	85	10	470	57	5	15	21	1.59
21477--21587	55	2.0	55	98	0	213	39	11	5	43	1.64
26557--26598	9	4.7	9	82	8	50	54	0	2	42	1.13
28107--28155	20	2.4	19	83	13	53	57	0	0	42	0.99
28106--28156	21	2.4	21	81	15	61	54	0	0	45	0.99
28529--28554	8	3.2	8	100	0	52	34	0	0	65	0.93
29522--29551	2	15.0	2	100	0	60	0	50	0	50	1.00
29551--29579	2	14.5	2	100	0	58	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29647--29699	27	1.9	27	81	11	63	47	5	3	43	1.45
29785--29864	28	3.0	27	73	17	78	60	0	2	37	1.11
29804--29838	15	2.2	15	90	10	52	60	0	2	37	1.12
29785--29865	36	2.3	34	78	20	85	59	0	2	38	1.11
31101--31186	25	3.5	25	79	16	90	43	1	0	55	1.07
31106--31194	42	2.1	42	100	0	178	42	0	0	57	0.98
31115--31176	17	3.6	18	81	18	71	41	0	0	58	0.98
31957--31983	13	2.1	13	100	0	54	44	0	0	55	0.99
32684--32879	100	2.0	98	85	6	263	46	7	9	36	1.64
33976--34014	16	2.4	16	86	0	60	66	2	5	25	1.25
34600--34636	19	1.9	19	89	10	58	59	0	0	40	0.97
34887--34956	10	7.2	10	73	22	60	47	0	1	51	1.09
34989--35028	19	2.0	20	85	4	55	52	0	0	47	1.00
36605--36651	2	23.5	2	95	0	85	51	2	0	46	1.13
37601--37633	13	2.4	14	95	5	59	51	0	3	45	1.16
37875--37910	17	2.1	17	89	5	54	47	5	0	47	1.25
39860--39885	12	2.2	12	100	0	52	34	0	0	65	0.93
47265--47321	20	2.7	21	76	15	55	59	0	0	40	0.97
47542--47587	10	4.7	10	83	5	58	30	0	0	69	0.89
47747--47792	2	23.0	2	100	0	92	50	0	0	50	1.00
48117--48363	127	1.9	127	96	0	458	39	8	6	44	1.61
50331--50397	11	6.1	11	70	19	59	70	1	1	26	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50336--50378	17	2.6	17	88	3	61	72	0	0	27	0.85
50440--50483	19	2.2	20	84	4	63	59	11	0	29	1.32
50767--50876	55	2.0	55	96	0	202	49	10	5	34	1.61
52157--52254	37	2.6	37	95	3	171	33	23	18	24	1.97
56008--56128	52	2.3	52	97	0	224	28	18	18	34	1.94
56008--56148	52	2.7	51	90	4	212	30	17	18	33	1.94
56137--56161	13	1.9	13	100	0	50	36	16	16	32	1.90
56227--56251	13	1.9	13	100	0	50	32	16	16	36	1.90
56205--56271	33	2.0	33	88	0	98	40	13	11	34	1.81
57204--58247	49	21.5	49	84	7	1362	32	17	25	24	1.97
57137--58247	98	11.4	98	92	4	1622	32	17	25	24	1.96
57137--58247	383	2.8	383	93	3	1817	32	17	25	24	1.96
58259--58351	33	2.8	33	93	6	163	15	19	36	29	1.92
58359--58988	34	18.1	34	74	16	437	33	12	33	20	1.91
58358--58547	71	2.7	70	92	3	303	35	12	33	18	1.89
58556--58988	33	13.0	33	79	13	435	32	12	33	21	1.91
58470--58639	87	1.9	88	92	1	288	32	14	33	19	1.91
58558--58988	70	6.5	68	77	15	445	32	12	33	21	1.91
58359--58775	228	1.8	225	86	6	599	34	12	33	19	1.90
58556--58988	141	3.3	133	80	12	473	32	12	33	21	1.91
58730--59071	95	3.6	94	81	8	333	31	14	31	22	1.94
58763--59044	155	1.8	154	81	9	356	31	14	31	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58953--59165	31	6.8	31	82	7	229	29	17	29	23	1.97
58958--59165	63	3.3	63	91	2	314	28	17	29	24	1.97
59163--59200	1	38.0	1	100	0	76	0	0	0	100	0.00
67466--67586	52	2.3	52	97	0	224	28	18	18	34	1.94
67466--67606	52	2.7	51	90	4	212	30	17	18	33	1.94
67595--67619	13	1.9	13	100	0	50	36	16	16	32	1.90
67685--67709	13	1.9	13	100	0	50	32	16	16	36	1.90
67663--67729	33	2.0	33	88	0	98	40	13	11	34	1.81
74549--74573	11	2.3	11	100	0	50	0	8	0	92	0.40
75251--75293	22	2.0	22	85	0	59	2	9	4	83	0.87
76857--76935	35	2.3	34	82	6	95	46	7	12	32	1.70
77678--77728	18	2.9	18	80	11	61	64	1	0	33	1.05
77701--77746	24	1.9	24	82	8	58	60	2	2	34	1.21
78427--78456	7	4.4	7	91	8	53	86	0	0	13	0.57
78427--78455	13	2.2	13	100	0	58	86	0	0	13	0.58
79336--79360	2	12.5	2	100	0	50	48	0	0	52	1.00
79931--79995	31	2.1	31	88	5	96	55	0	1	43	1.09
79933--80005	31	2.5	28	77	12	76	54	0	2	42	1.14
79946--80014	32	2.2	31	85	12	88	57	0	1	40	1.07
81287--81328	18	2.4	18	84	11	52	73	0	0	26	0.83
84828--84856	2	14.5	2	100	0	58	51	0	48	0	1.00
85452--85504	26	2.0	27	88	3	81	52	3	5	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
91105--91160	3	18.7	3	85	7	78	66	3	0	30	1.09
91230--91310	5	16.4	5	71	19	55	60	0	3	35	1.15
91222--91258	16	2.1	19	85	14	53	54	0	2	43	1.14
91269--91313	17	2.6	17	89	6	65	66	0	2	31	1.04
91221--91322	45	2.2	45	83	10	127	60	0	2	36	1.12
92883--93077	100	2.0	95	81	13	225	52	3	1	43	1.25
93025--93062	16	2.4	16	91	4	60	63	0	0	36	0.95
94334--94358	6	4.2	6	100	0	50	64	0	0	36	0.94
94376--94433	11	5.4	11	75	4	64	46	1	1	50	1.22
94361--94434	22	3.7	21	84	13	86	47	1	1	50	1.18
94346--94446	20	5.1	20	72	22	81	48	0	0	49	1.14
94381--94470	22	4.1	22	79	16	80	45	2	1	51	1.21
94410--94471	24	2.5	24	82	10	72	43	1	0	54	1.09
94453--94482	13	2.3	13	94	0	51	36	0	0	63	0.95
99073--99350	140	2.0	140	97	0	529	48	3	3	43	1.38
100108--100137	14	2.1	14	93	0	51	53	0	0	46	1.00
111245--111269	13	1.9	13	100	0	50	32	0	0	68	0.90
111939--111989	21	2.4	22	83	9	61	72	3	1	21	1.11
111940--111991	22	2.4	21	75	15	52	71	3	1	23	1.13
112411--112445	2	17.5	2	100	0	70	0	48	0	51	1.00
114115--114174	6	10.0	6	73	20	54	38	0	0	61	0.96
114123--114174	17	2.9	19	83	10	58	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115245--115312	23	3.0	23	78	2	75	64	1	2	30	1.17
115237--115289	11	4.6	11	79	6	61	66	0	3	30	1.10
115292--115385	20	4.8	18	71	21	73	64	0	1	34	1.00
115258--115383	40	3.1	39	80	8	137	65	0	1	31	1.07
115287--115381	7	13.1	7	68	22	54	65	1	1	32	1.07
115265--115378	21	5.6	21	69	20	64	65	0	0	32	1.04
115907--115946	14	2.9	15	85	10	50	50	0	0	50	1.00
115887--115963	40	1.9	40	85	15	106	53	0	0	46	1.00
115886--115974	40	2.2	40	79	16	94	55	0	0	44	0.99
116152--116177	2	13.0	2	100	0	52	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9