genome.fa.s262.2.7.7.80.10.50.1000.1.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: Scaffold262
Parameters: 2 7 7 80 10 50 1000
Length:  1141274

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 957 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)
7701--7754	25	2.2	25	83	6	65	55	3	5	35	1.41
7770--7810	17	2.4	17	81	18	50	58	2	0	39	1.11
8166--8231	32	2.0	33	83	13	84	54	4	1	39	1.30
8362--8401	15	2.5	16	88	8	55	57	0	0	42	0.98
8362--8404	16	2.6	17	85	10	63	55	0	0	44	0.99
8839--8880	15	2.9	15	79	6	52	57	0	4	38	1.20
8819--8899	37	2.2	37	80	4	92	61	1	4	32	1.25
9286--9322	19	2.0	19	85	15	51	70	8	2	18	1.25
9287--9347	22	2.7	22	76	5	68	67	4	3	24	1.26
9602--9631	2	15.5	2	93	6	53	53	0	0	46	1.00
9936--9968	12	2.7	13	81	18	52	0	21	0	78	0.75
10332--10379	16	3.0	16	80	17	55	62	0	0	37	0.95
10432--10472	4	10.8	4	92	5	59	2	17	0	80	0.82
10416--10475	18	3.5	18	77	11	63	3	18	0	78	0.89
10407--10474	22	3.2	21	78	10	75	2	16	1	79	0.93
10420--10472	26	2.0	28	92	7	92	3	16	0	79	0.88
10725--10749	13	1.9	13	100	0	50	64	0	0	36	0.94
11801--11825	13	1.9	13	100	0	50	64	0	0	36	0.94
12227--12275	18	2.6	18	87	6	62	36	0	0	63	0.95
12672--12736	19	3.2	20	76	14	62	49	0	4	46	1.22
14109--14173	32	2.0	34	87	6	98	50	1	0	47	1.10
14118--14167	17	3.1	16	76	18	59	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14109--14175	34	2.0	34	85	11	93	50	1	0	47	1.10
14123--14176	16	3.4	16	75	10	56	51	0	0	48	1.00
14646--14691	24	1.9	24	86	8	67	4	19	2	73	1.10
14632--14691	23	2.6	22	82	15	68	3	23	1	71	1.10
14703--14733	4	7.8	4	100	0	62	77	0	0	22	0.77
15046--15115	35	2.0	35	86	5	97	68	0	0	31	0.90
17421--17451	15	2.1	15	93	0	53	45	0	0	54	0.99
17542--17619	39	2.1	36	81	11	86	47	1	1	50	1.17
17841--17954	6	18.7	6	65	22	51	59	0	1	38	1.08
17831--17960	28	4.7	27	72	13	95	58	0	1	40	1.07
17851--17970	28	4.3	27	77	15	111	59	0	0	39	1.09
18656--18707	24	2.3	22	87	9	70	59	0	0	40	0.97
20439--20463	2	12.5	2	100	0	50	52	0	0	48	1.00
23464--23521	17	3.5	16	80	19	66	34	0	1	63	1.04
23470--23542	24	3.2	23	80	7	78	34	0	0	65	0.93
23464--23520	18	3.4	18	79	13	68	33	0	1	64	1.04
23470--23542	5	14.8	5	74	17	55	34	0	0	65	0.93
25930--25969	20	2.0	20	95	0	71	57	0	0	42	0.98
26179--26221	15	2.6	16	82	14	52	48	0	0	51	1.00
26450--26509	20	2.9	21	80	12	70	55	1	1	41	1.20
27042--27190	69	2.2	69	96	0	271	38	13	11	36	1.81
27427--27453	7	3.9	7	100	0	54	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27427--27472	15	3.0	17	85	14	57	45	0	0	54	0.99
27472--27519	20	2.5	20	79	3	53	52	2	0	45	1.12
27513--27552	21	1.9	21	90	10	64	40	0	0	60	0.97
29274--29324	27	1.9	27	84	4	68	45	1	0	52	1.12
29757--29845	41	2.1	42	86	10	121	41	0	2	56	1.12
29856--29900	16	2.9	16	78	18	51	40	0	0	60	0.97
29856--29889	17	2.1	16	88	5	50	41	0	0	58	0.98
29857--29975	14	8.5	13	69	15	60	41	0	0	57	1.10
29964--30029	24	2.7	23	76	17	71	56	1	0	42	1.08
29967--30022	19	2.8	20	71	15	53	57	1	0	41	1.09
30557--30601	17	2.7	17	86	10	58	46	6	2	44	1.42
30741--30818	40	2.0	39	85	12	106	52	0	0	47	1.00
30921--31063	45	3.0	46	77	10	135	46	1	0	52	1.09
30975--31022	17	2.9	17	72	27	50	43	0	0	56	0.99
30984--31089	32	3.2	33	79	7	101	43	1	0	54	1.11
30921--31029	47	2.4	45	80	9	114	47	0	0	51	1.07
30984--31059	40	1.9	39	84	12	102	44	2	0	52	1.14
30973--31068	40	2.4	39	77	19	90	42	2	0	55	1.11
30933--31105	10	18.9	10	67	22	53	42	1	0	55	1.10
32423--32471	16	3.1	16	74	11	55	51	8	4	36	1.51
34340--34578	76	3.0	77	85	6	291	31	11	16	40	1.84
34663--34692	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37584--37632	19	2.5	20	80	16	57	51	0	4	44	1.20
37572--37624	18	2.9	18	75	5	52	52	0	3	43	1.19
37599--37647	20	2.4	21	80	10	57	55	0	0	44	0.99
39921--39990	26	2.6	26	86	8	88	44	25	7	22	1.78
44492--44562	27	2.6	28	86	6	92	46	23	5	23	1.74
44954--44991	16	2.4	16	91	8	60	26	0	0	73	0.83
45097--45176	16	4.9	17	69	14	53	41	0	1	57	1.07
45089--45137	25	1.9	26	83	4	64	32	2	2	63	1.17
46238--46340	29	3.5	30	72	17	74	43	0	0	55	1.06
46281--46351	32	2.2	33	87	7	101	46	4	0	49	1.21
48126--48189	27	2.3	28	81	7	69	45	0	0	54	0.99
48159--48227	18	3.9	18	69	19	56	42	1	0	56	1.08
48156--48232	34	2.3	33	82	10	95	41	2	0	55	1.13
49389--49584	94	2.1	94	90	0	304	50	6	1	41	1.38
49606--49641	17	2.0	19	89	10	58	50	0	0	50	1.00
49609--49669	23	2.7	22	74	20	63	47	0	1	50	1.10
49864--49905	19	2.3	18	91	4	66	33	0	2	64	1.07
49924--49966	18	2.4	18	85	11	54	34	0	2	62	1.08
53997--54029	3	11.3	3	93	6	59	63	0	0	36	0.95
54225--54259	13	2.7	13	81	0	52	68	0	0	31	0.90
56969--57009	20	2.1	20	86	4	57	73	2	4	19	1.13
57444--57470	2	13.5	2	100	0	54	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)
61383--61416	15	2.3	15	89	0	50	32	0	2	64	1.08
64543--64751	73	2.9	73	96	1	377	40	15	11	32	1.84
72358--72395	14	2.7	15	84	12	53	55	0	0	44	0.99
74499--74534	2	18.0	2	88	0	54	47	2	2	47	1.31
74489--74534	16	2.9	16	86	0	56	45	6	4	43	1.49
75703--75741	2	19.5	2	100	0	78	51	0	0	48	1.00
76587--76676	43	2.1	43	85	4	119	38	7	15	37	1.76
79734--79839	30	3.5	30	78	14	92	43	0	10	46	1.38
79773--79841	30	2.3	30	87	5	95	43	0	8	47	1.34
81849--81913	22	2.9	22	90	4	94	36	0	7	55	1.29
85724--85773	27	2.0	25	84	11	66	24	4	24	48	1.68
91516--91593	1	78.0	1	79	0	66	0	7	5	87	0.68
91516--91593	32	2.5	30	93	6	138	0	7	5	87	0.68
107012--107037	3	8.7	3	100	0	52	30	0	0	69	0.89
107178--107235	30	2.0	29	86	3	80	36	0	3	60	1.14
107335--107416	24	3.4	24	79	14	89	48	0	0	51	1.00
108174--108205	3	10.7	3	100	0	64	65	0	0	34	0.93
109473--109509	6	6.0	6	93	6	65	0	35	16	48	1.46
109806--109879	6	12.5	6	78	8	80	13	33	4	48	1.61
110031--110056	2	13.0	2	100	0	52	50	0	0	50	1.00
110077--110106	4	7.8	4	92	7	53	0	20	0	80	0.72
111879--111915	18	2.1	18	94	0	65	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
114547--114572	9	2.9	9	100	0	52	23	0	0	76	0.78
114539--114592	18	3.0	18	80	0	63	37	0	0	62	0.95
114544--114618	37	2.1	36	85	7	98	37	0	0	62	0.95
115236--115273	19	2.0	19	90	10	60	39	0	0	60	0.97
116731--116782	23	2.3	23	80	6	61	44	1	1	51	1.23
116872--116921	25	2.0	24	88	3	73	68	0	2	30	1.01
117813--117871	18	3.4	18	74	25	65	42	0	0	57	0.98
118208--118275	29	2.3	29	84	0	91	42	0	1	55	1.08
118217--118268	14	3.6	14	82	5	59	34	0	0	65	0.93
118217--118268	7	7.1	8	74	25	53	34	0	0	65	0.93

Tables:   1   2   3   4   5   6   7   8