genome.fa.s808.2.7.7.80.10.50.1000.1.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: Scaffold808
Parameters: 2 7 7 80 10 50 1000
Length:  140563

Tables:   1   2   

This is table  1  of  2  ( 150 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)
1377--1411	12	2.9	12	91	0	52	62	8	0	28	1.24
1629--1690	8	7.2	8	80	20	72	74	0	0	25	0.82
1629--1684	9	6.2	9	78	13	62	75	0	0	25	0.81
1629--1684	17	3.0	19	80	15	80	75	0	0	25	0.81
1651--1696	16	2.8	17	80	16	60	71	0	0	28	0.86
3932--3990	21	2.8	21	87	7	84	50	0	1	47	1.11
3955--3998	21	2.1	21	91	0	70	50	0	0	50	1.00
5536--5577	21	2.0	21	90	0	66	23	33	0	42	1.55
6757--6812	28	2.0	28	100	0	112	39	10	17	32	1.84
7538--7595	27	2.1	27	93	0	98	24	46	1	27	1.62
7896--8164	36	7.2	36	68	12	184	31	6	22	39	1.80
7857--8128	39	7.2	38	64	15	127	29	7	22	40	1.81
7857--8194	75	4.5	75	92	0	541	30	7	21	39	1.82
10940--11231	147	2.0	146	82	6	358	35	20	18	25	1.95
11158--11816	155	4.3	152	77	5	569	39	21	15	23	1.91
13610--13673	19	3.7	19	74	23	77	31	12	17	39	1.87
13629--13655	13	2.1	13	100	0	54	29	14	14	40	1.86
13609--13681	32	2.3	32	95	0	128	31	12	17	38	1.87
16940--16965	9	2.9	9	100	0	52	0	11	0	88	0.52
16954--16979	13	2.0	13	100	0	52	0	23	0	76	0.78
17453--18013	166	3.4	165	78	6	528	49	6	10	33	1.63
17629--17937	167	1.8	168	83	3	408	49	6	11	32	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
21963--22021	24	2.3	26	75	16	70	69	1	1	27	1.07
22013--22073	21	2.8	21	83	14	63	57	0	0	42	0.98
22432--22488	27	2.1	26	81	12	62	57	0	0	42	0.98
22681--22705	12	2.1	12	100	0	50	60	8	16	16	1.58
22891--22927	19	1.9	20	88	5	58	51	0	0	48	1.00
22983--23020	20	1.9	20	89	10	60	63	0	0	36	0.95
22964--23020	16	3.5	16	71	21	55	61	0	1	36	1.07
23064--23137	24	2.9	24	75	15	69	40	0	2	56	1.13
23456--23500	21	2.1	21	83	0	54	51	0	0	48	1.00
23798--23829	16	2.0	16	93	0	55	40	0	0	59	0.97
23919--23951	15	2.1	16	88	5	50	39	0	0	60	0.97
25710--25790	38	2.1	38	95	0	144	51	8	20	18	1.72
26688--26718	16	1.9	16	100	0	62	12	0	0	87	0.55
26742--26797	23	2.3	23	78	6	58	53	0	3	42	1.18
26799--26881	36	2.3	35	84	10	98	53	0	2	44	1.13
27403--27522	25	4.6	25	77	15	102	41	0	0	56	1.11
27427--27539	52	2.1	58	83	9	148	40	0	0	58	1.04
27458--27545	35	2.4	38	75	15	98	40	0	0	59	0.98
27457--27544	12	6.9	13	69	23	55	40	0	0	59	0.98
27745--27796	20	2.5	20	79	14	61	57	0	0	42	0.98
28182--28213	17	1.9	16	93	6	55	65	0	0	34	0.93
28215--28249	16	2.1	17	89	5	54	60	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
28601--28694	47	2.0	47	95	0	170	27	36	25	10	1.89
29242--29498	135	1.9	135	95	0	469	36	12	20	29	1.90
29742--29818	20	3.8	20	77	6	84	41	10	14	33	1.80
30700--30757	27	2.0	29	83	9	75	37	0	0	62	0.96
30941--30988	17	2.7	17	81	12	53	35	4	2	58	1.29
31121--31161	16	2.6	16	84	0	55	41	36	17	4	1.71
32398--32448	19	2.5	21	71	9	52	58	0	0	41	0.98
32420--32475	24	2.4	24	77	19	64	62	0	0	37	0.95
32454--32526	29	2.5	30	80	17	82	57	2	0	39	1.13
32464--32531	27	2.5	25	73	15	64	57	2	0	39	1.14
35518--35592	37	2.0	37	92	0	123	33	26	9	30	1.88
38548--38632	34	2.5	34	86	5	111	50	1	2	45	1.22
38698--38754	19	2.9	19	72	15	53	47	1	3	47	1.29
39106--39174	36	2.0	33	81	18	79	44	1	4	49	1.31
39913--39977	29	2.2	31	81	15	84	67	1	1	29	1.09
39919--39988	28	2.5	27	76	19	72	67	2	1	28	1.14
39866--40056	8	23.2	8	68	20	60	64	2	2	30	1.16
40149--40228	23	3.3	24	72	16	58	30	1	1	67	1.06
40138--40250	8	13.8	8	74	15	81	33	0	1	63	1.11
40138--40252	25	4.6	25	77	14	105	33	0	1	64	1.10
40133--40305	17	10.2	16	72	14	118	31	1	3	64	1.18
40140--40260	41	2.9	39	81	11	127	30	0	3	65	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40133--40312	8	21.2	8	70	15	78	31	1	3	63	1.19
40810--40849	21	2.0	20	90	5	62	32	0	0	67	0.91
41469--41526	11	5.4	11	78	19	68	65	6	6	20	1.40
41474--41537	32	2.0	32	100	0	128	65	6	6	21	1.38
44749--44803	28	2.0	28	85	0	74	52	3	5	38	1.42
46132--46172	3	14.0	3	94	5	75	65	0	0	34	0.93
46134--46168	17	2.1	17	100	0	70	65	0	0	34	0.93
46132--46171	20	2.0	20	100	0	80	65	0	0	35	0.93
48431--48482	22	2.4	20	81	15	59	69	0	0	30	0.89
48432--48464	14	2.3	15	89	5	50	69	0	0	30	0.88
48430--48467	15	2.5	15	83	12	51	68	0	0	31	0.90
49915--49967	27	2.0	27	96	0	97	35	11	7	45	1.69
54619--54671	27	2.0	27	96	0	97	35	11	7	45	1.69
54866--54924	16	3.6	16	78	15	59	45	0	0	54	0.99
54874--54924	17	3.0	17	83	11	52	43	0	0	56	0.99
55427--55468	15	2.7	16	75	20	52	45	0	4	50	1.23
55446--55509	31	2.1	31	82	8	78	51	0	1	46	1.10
56758--56807	21	2.5	20	78	9	57	42	10	2	46	1.49
56914--56946	16	2.0	17	88	5	50	51	0	6	42	1.26
57234--57327	17	4.9	18	66	19	57	39	5	3	52	1.40
57230--57680	210	2.2	209	79	7	504	41	5	6	47	1.53
57706--57757	19	2.7	20	85	11	65	44	0	1	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57964--58039	37	2.0	40	82	12	97	48	0	0	51	1.00
59910--59961	22	2.2	24	83	6	63	51	3	5	38	1.44
60903--60944	21	2.0	21	90	0	66	35	14	14	35	1.86
63906--63938	2	16.5	2	93	0	57	48	3	0	48	1.17
68182--68216	12	2.8	13	82	8	54	34	0	0	65	0.93
69003--69040	19	2.0	19	90	10	60	44	0	0	55	0.99
69007--69049	19	2.2	20	87	4	61	46	0	0	53	1.00
69385--69449	10	6.4	10	75	16	53	46	0	0	53	1.00
69392--69480	32	2.9	32	83	8	96	39	0	0	60	0.97
69402--69465	19	3.3	19	79	18	69	40	0	0	59	0.97
69393--69459	13	5.1	13	73	20	50	44	0	0	55	0.99
69437--69483	7	6.4	7	77	18	51	31	0	0	68	0.90
69421--69491	23	3.0	22	76	13	70	33	0	0	66	0.92
69408--69493	29	2.9	30	83	10	88	37	0	0	62	0.95
73329--73367	19	2.1	19	85	9	53	41	0	0	58	0.98
73885--73927	11	3.9	11	84	6	52	72	4	0	23	1.04
74084--74127	14	3.0	14	80	9	52	0	34	2	63	1.07
74802--74838	19	1.9	19	88	0	56	16	0	13	70	1.17
77181--77251	32	2.2	33	82	7	92	54	0	0	45	0.99
77248--77309	18	3.2	18	72	17	52	56	6	1	35	1.35
77771--77901	67	2.0	67	96	1	246	37	0	9	52	1.35
85746--85793	2	25.0	2	85	8	64	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86997--87045	16	3.1	16	75	18	57	61	0	0	38	0.96
86996--87052	16	3.6	15	75	17	53	56	0	0	43	0.99
87052--87090	18	2.2	19	86	9	55	66	2	0	30	1.05
90114--90346	50	4.6	50	92	0	376	30	20	20	28	1.97
94435--94487	19	2.8	19	82	0	70	32	22	20	24	1.98
94736--94995	50	5.2	50	93	1	423	30	20	19	29	1.97
97006--97030	13	1.9	13	100	0	50	48	4	0	48	1.20
98489--98533	2	22.5	2	90	0	63	44	4	2	48	1.35
99776--99817	22	1.9	22	90	9	68	38	0	0	61	0.96
100166--100239	22	3.5	22	66	26	68	50	0	9	40	1.35

Tables:   1   2