genome.fa.s477.2.7.7.80.10.50.1000.1.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: Scaffold477
Parameters: 2 7 7 80 10 50 1000
Length:  400253

Tables:   1   2   3   

This is table  1  of  3  ( 352 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)
2070--2110	19	2.2	19	90	0	64	51	0	0	48	1.00
2804--2854	27	1.9	27	84	4	68	54	5	1	37	1.36
3401--3441	20	2.0	22	90	9	68	70	0	0	29	0.87
3626--3652	13	2.1	13	100	0	54	55	0	0	44	0.99
3627--3671	15	3.1	15	87	6	58	48	2	0	48	1.13
4032--4177	9	15.4	9	67	23	70	41	0	0	58	0.98
4035--4190	22	7.1	22	67	25	73	41	0	0	58	0.98
4056--4190	31	4.6	28	74	19	100	43	0	0	56	0.99
4086--4182	39	2.5	38	79	15	110	43	0	0	56	0.99
4085--4166	33	2.5	30	86	11	101	45	0	0	54	0.99
4032--4177	59	2.6	58	80	13	178	41	0	0	58	0.98
4436--4501	12	5.8	12	77	16	77	69	0	0	30	0.88
4436--4575	17	8.0	17	73	18	92	61	0	0	38	0.96
4436--4538	33	2.9	33	79	12	98	65	0	0	34	0.93
4513--4563	14	3.4	14	75	19	57	52	0	0	47	1.00
4436--4547	45	2.5	46	82	7	131	63	0	0	36	0.95
4494--4578	32	2.6	32	88	7	118	55	0	0	44	0.99
4488--4570	18	4.6	19	76	22	81	55	0	0	44	0.99
4436--4574	32	3.8	37	71	23	100	61	0	0	38	0.96
4494--4588	32	2.9	32	86	7	95	57	0	0	42	0.98
4588--4624	11	3.5	11	78	14	51	62	5	5	27	1.39
4580--4624	20	2.2	20	100	0	90	66	4	4	24	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5663--5702	21	2.0	21	85	5	55	55	0	10	35	1.34
5768--5799	14	2.2	15	94	5	57	62	0	0	37	0.95
6022--6113	42	2.2	41	81	9	105	40	1	0	58	1.05
6044--6118	37	2.2	33	83	9	87	42	0	0	57	0.98
6530--6576	21	2.2	21	88	7	69	53	0	0	46	1.00
6550--6599	25	2.0	26	84	11	68	50	0	0	50	1.00
7723--7765	19	2.1	21	83	8	54	62	2	2	32	1.20
8483--8541	30	2.0	29	86	3	82	38	1	0	59	1.08
8521--8564	18	2.4	19	92	7	81	47	0	0	52	1.00
8731--8799	24	3.0	22	80	14	77	40	1	0	57	1.07
8734--8835	48	2.1	47	81	12	111	45	0	0	53	1.06
8876--8909	17	2.0	17	94	0	59	58	2	0	38	1.13
9079--9128	22	2.3	22	86	6	66	42	0	2	56	1.11
9080--9368	158	1.8	155	91	3	481	48	2	1	46	1.26
9320--9378	21	2.8	21	85	12	68	57	1	0	40	1.09
20897--21268	75	5.0	74	81	5	365	24	17	28	29	1.97
20902--21268	150	2.5	150	83	3	445	24	17	29	29	1.97
21256--21281	13	2.0	13	100	0	52	15	23	38	23	1.92
21181--21358	88	2.0	88	87	0	257	25	20	28	26	1.99
21736--22292	78	7.2	78	80	0	578	22	16	35	26	1.95
22082--22288	26	8.0	26	67	18	81	21	17	36	24	1.94
23657--23931	75	3.7	75	78	3	250	26	20	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
23658--23931	150	1.8	150	81	1	343	26	20	24	28	1.99
25262--25286	11	2.3	11	100	0	50	32	0	0	68	0.90
27095--27123	15	1.9	15	100	0	58	79	0	6	13	0.93
27463--27518	5	11.0	5	82	17	71	55	1	0	42	1.10
27463--27518	25	2.2	26	96	3	105	55	1	0	42	1.10
27463--27521	21	2.9	20	82	12	68	57	1	0	40	1.09
27488--27527	21	1.9	21	84	0	53	62	2	0	35	1.09
27473--27527	26	2.2	25	86	3	74	61	1	0	36	1.06
28629--28695	21	3.2	21	81	6	84	35	0	1	62	1.04
28630--28715	36	2.4	37	81	13	99	37	0	2	60	1.10
28662--28701	21	1.9	21	89	0	62	40	0	0	60	0.97
29033--29072	21	2.0	21	85	5	55	45	0	2	52	1.14
35465--35494	8	3.6	8	95	4	51	86	3	10	0	0.67
36268--36336	28	2.5	28	82	17	83	57	0	1	40	1.07
36268--36351	30	3.0	28	73	22	70	58	0	3	38	1.16
36341--36394	22	2.4	21	81	9	54	62	1	5	29	1.28
36565--36615	19	2.8	18	72	21	52	72	0	0	27	0.85
36739--36797	20	3.2	19	86	11	79	1	33	0	64	1.04
36900--36953	20	2.7	19	77	8	63	44	0	0	55	0.99
36902--36974	18	3.7	19	74	15	67	43	0	0	56	0.99
36928--36996	8	8.5	8	73	20	54	37	2	0	59	1.12
36942--36988	18	2.6	18	86	6	60	36	4	0	59	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36922--36996	33	2.3	32	86	2	96	37	2	0	60	1.11
36989--37043	12	4.7	12	79	4	58	34	1	0	63	1.05
36989--37057	23	3.0	23	78	18	79	37	1	0	60	1.06
37547--37601	28	1.9	29	88	3	85	47	3	0	49	1.19
37575--37629	22	2.5	22	78	0	65	47	0	3	49	1.19
37804--37845	22	1.9	22	85	9	59	52	7	7	33	1.56
38890--38927	6	6.2	6	87	6	58	44	2	0	52	1.14
38896--38939	19	2.4	18	81	7	52	43	6	0	50	1.29
42097--42137	13	3.1	13	86	13	57	34	0	0	65	0.93
42098--42139	15	3.1	15	80	19	56	35	0	0	64	0.94
42720--42763	20	2.2	20	84	8	54	45	2	2	50	1.27
44248--44299	24	2.2	23	80	12	61	46	5	0	48	1.26
46195--46433	124	1.9	125	87	2	347	46	1	7	45	1.39
46930--46979	25	2.0	24	85	11	66	46	0	0	54	1.00
46930--46981	23	2.2	23	86	6	68	46	0	0	53	1.00
48689--48810	62	2.0	62	85	9	169	38	9	8	43	1.68
48874--48926	28	2.0	26	81	7	61	20	13	1	64	1.38
49116--49175	13	4.5	13	77	10	50	35	5	0	60	1.19
49556--49580	12	2.1	12	100	0	50	8	0	0	92	0.40
50719--50818	29	3.3	30	79	14	91	37	1	2	60	1.15
50760--50815	11	5.0	11	73	18	53	42	1	0	55	1.10
50732--50779	18	2.4	20	80	16	55	35	0	2	62	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
50752--50815	22	2.9	21	77	13	58	40	1	0	57	1.08
51959--52004	22	2.1	22	88	4	67	41	0	0	58	0.98
51958--52004	21	2.1	23	80	11	62	40	0	0	59	0.97
54233--54272	17	2.4	16	83	4	53	55	0	0	45	0.99
57904--57940	2	18.5	2	100	0	74	48	0	0	51	1.00
73911--73968	2	29.0	2	100	0	116	50	0	0	50	1.00
79616--79692	38	2.0	40	82	10	97	48	1	0	50	1.09
80138--80167	6	5.0	6	100	0	60	0	50	0	50	1.00
83943--83987	17	2.6	17	82	10	56	68	0	0	31	0.89
85966--85995	3	10.0	3	100	0	60	66	0	0	33	0.92
92043--92094	20	2.7	20	77	14	63	63	1	0	34	1.06
93115--93148	1	34.0	1	87	0	50	2	94	0	2	0.38
93115--93147	14	2.4	14	94	0	57	3	93	0	3	0.39
99631--99704	29	2.5	30	86	8	107	37	5	1	55	1.31
99631--99711	30	2.8	29	83	7	101	37	6	1	55	1.33
101424--101480	17	3.2	17	83	9	69	64	0	0	35	0.93
101424--101466	19	2.4	19	85	14	56	67	0	0	32	0.91
102334--102408	20	3.7	20	75	13	73	36	0	0	64	0.94
102332--102414	10	8.0	10	68	11	51	33	0	0	66	0.92
102330--102416	22	4.1	22	73	12	76	34	0	0	65	0.93
102696--102764	18	4.1	18	76	14	67	62	0	1	36	1.04
102769--102826	12	5.0	11	76	12	53	36	0	0	63	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103202--103247	17	2.7	17	83	12	67	52	0	0	47	1.00
103201--103247	16	2.8	17	84	15	71	51	0	0	48	1.00
104244--104302	17	3.3	19	72	18	72	49	1	0	49	1.11
104239--104326	34	2.5	35	77	15	101	51	1	0	47	1.08
106516--106569	10	4.9	11	76	14	58	40	0	1	57	1.09
106912--106956	18	2.3	20	81	11	58	37	0	0	62	0.96
106900--106949	25	2.0	26	88	11	77	42	0	0	58	0.98
106912--106998	19	4.6	18	73	17	70	35	0	0	64	0.94
106909--106986	25	3.2	25	79	17	83	35	0	0	64	0.94
106931--107007	25	3.1	24	75	20	70	33	0	0	66	0.92

Tables:   1   2   3