genome.fa.s230.2.7.7.80.10.50.1000.1.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: Scaffold230
Parameters: 2 7 7 80 10 50 1000
Length:  2055625

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  1  of  14  ( 1594 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)
1006--1054	22	2.3	20	86	6	62	42	0	0	57	0.99
1068--1104	16	2.3	16	90	0	56	43	0	2	54	1.14
1214--1257	15	3.1	15	81	15	58	50	0	4	45	1.22
1268--1300	15	2.2	15	89	10	50	63	0	0	36	0.95
3265--3298	17	2.0	17	88	11	52	50	0	2	47	1.16
3280--3308	13	2.1	14	93	6	51	48	0	0	51	1.00
3259--3308	15	3.3	15	73	26	52	48	0	2	50	1.12
3690--3756	34	1.9	35	90	3	109	55	1	1	41	1.18
6473--6497	2	12.5	2	100	0	50	52	0	0	48	1.00
7115--7237	25	5.2	25	71	13	71	50	0	0	49	1.00
7082--7191	46	2.5	44	79	16	120	50	0	0	49	1.07
7192--7235	23	1.9	23	90	0	70	54	0	0	45	0.99
7514--7546	13	2.5	13	90	9	50	54	0	0	45	0.99
7528--7565	18	2.1	18	95	0	67	44	0	0	55	0.99
8031--8092	32	1.9	33	83	9	83	29	8	12	50	1.69
12504--12550	6	7.7	6	80	4	58	48	0	0	51	1.00
12792--12838	17	2.8	17	83	3	60	46	0	0	53	1.00
14202--14247	14	3.6	14	72	22	55	58	0	0	41	0.98
14205--14251	24	2.0	24	100	0	94	55	0	0	44	0.99
15256--15294	17	2.4	17	82	4	53	56	0	0	43	0.99
15976--16005	2	15.0	2	100	0	60	50	0	0	50	1.00
20312--20437	30	4.2	30	76	8	105	48	0	3	47	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20349--20436	31	2.9	31	84	3	126	53	0	2	44	1.13
20675--20723	23	2.2	22	85	3	62	34	4	0	61	1.15
20682--20731	22	2.2	23	89	3	84	34	0	0	66	0.92
20683--20734	11	4.6	11	83	11	61	32	0	0	67	0.91
20695--20739	11	4.1	11	80	11	56	33	2	0	64	1.06
20899--20926	1	28.0	1	100	0	56	0	0	0	100	0.00
21081--21113	2	16.5	2	100	0	66	48	0	0	51	1.00
21217--21280	33	1.9	34	90	3	103	46	1	0	51	1.10
21313--21357	21	2.1	22	87	4	65	53	4	4	37	1.41
21441--21525	29	3.0	29	68	29	76	56	7	1	35	1.34
21511--21553	19	2.4	17	76	7	50	60	0	0	39	0.97
21518--21577	27	2.2	25	76	21	59	58	1	0	40	1.08
25655--25738	20	4.5	19	72	22	56	34	0	1	64	1.02
26241--26284	20	2.3	19	84	4	52	84	2	11	2	0.81
26237--26276	19	2.1	19	90	4	62	80	2	17	0	0.83
26883--26936	23	2.3	24	78	9	58	29	5	3	61	1.36
27153--27209	29	2.0	29	82	6	71	56	0	0	43	0.99
27338--27391	4	14.2	4	81	11	53	75	0	22	1	0.89
28585--28609	12	2.1	12	100	0	50	64	0	36	0	0.94
28585--28623	15	2.5	15	83	4	51	69	0	30	0	0.89
28613--28649	11	3.5	10	86	13	56	86	0	10	2	0.67
29589--29667	8	9.6	8	80	14	90	84	0	15	0	0.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29589--29667	24	3.3	23	85	8	104	84	0	15	0	0.61
29596--29658	7	8.4	7	86	10	81	85	0	14	0	0.59
29589--29659	1	71.0	1	71	0	52	85	0	14	0	0.59
30400--30537	28	5.2	25	74	16	91	31	2	2	63	1.21
30451--30510	12	5.3	11	75	18	52	30	1	0	68	0.99
30464--30510	22	2.0	24	88	8	71	29	2	0	68	1.02
30445--30512	35	1.9	35	82	5	84	32	1	0	66	1.01
30478--30525	22	2.3	22	85	7	64	31	2	0	66	1.03
30529--30609	43	2.0	40	83	11	101	45	0	1	53	1.08
30570--30610	17	2.5	17	84	7	59	43	0	0	56	0.99
31934--32023	16	5.4	16	65	21	51	43	1	1	54	1.14
31940--32027	33	2.6	33	79	15	99	44	1	1	53	1.15
32354--32400	17	2.6	18	80	6	51	59	0	2	38	1.09
32360--32399	19	2.1	20	86	9	57	62	0	0	37	0.95
32545--32574	2	15.0	2	100	0	60	50	0	0	50	1.00
36120--36162	5	8.8	5	94	5	79	39	0	0	60	0.97
36758--36796	20	2.0	20	94	0	69	64	0	2	33	1.08
37138--37178	16	2.4	18	84	16	68	58	4	9	26	1.50
37145--37179	16	2.2	16	100	0	70	57	5	11	25	1.56
37405--37437	17	2.1	16	88	11	50	48	3	0	48	1.17
37512--37567	27	2.0	27	83	10	69	25	5	17	51	1.66
37478--37588	51	2.1	53	80	8	129	27	6	17	48	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42045--42101	27	2.1	27	90	3	89	33	8	12	45	1.72
42315--42357	21	2.0	21	81	4	50	20	6	0	72	1.08
42875--42915	16	2.4	18	80	15	52	46	0	4	48	1.23
43426--43482	19	3.1	17	76	14	60	47	0	3	49	1.18
43463--43562	39	2.6	38	82	7	105	49	0	3	48	1.16
43146--43876	357	2.0	359	91	3	1193	40	6	6	45	1.57
43793--43849	19	3.1	18	75	9	62	49	1	1	47	1.22
44273--44408	57	2.3	57	77	17	145	44	0	1	53	1.09
48346--48375	2	14.5	2	93	6	51	50	0	3	46	1.18
49462--49555	47	2.0	47	95	0	170	19	21	32	26	1.97
49838--49883	16	2.8	17	75	18	51	58	0	0	41	0.98
50496--50558	10	6.5	10	75	21	55	55	0	1	42	1.09
50490--50561	18	3.8	20	74	17	64	56	0	1	41	1.07
50511--50579	18	3.8	18	73	26	65	53	0	0	46	1.00
50566--50621	23	2.5	23	77	8	62	57	0	3	39	1.16
53126--53219	30	3.1	30	84	0	125	35	23	11	29	1.90
56731--56770	21	1.9	21	94	0	71	10	22	27	40	1.86
56731--56770	10	3.9	10	83	6	53	10	22	27	40	1.86
57134--57229	31	3.1	31	77	5	122	46	12	17	22	1.82
57107--57229	62	2.0	62	95	0	219	48	13	15	21	1.80
57242--57283	22	2.0	22	90	4	68	42	14	7	35	1.73
57470--57558	30	3.0	30	89	0	133	34	23	12	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58821--58870	17	3.0	16	75	18	57	50	12	0	38	1.40
63389--63477	21	4.2	21	80	5	90	39	34	8	16	1.80
66583--66615	3	11.0	3	100	0	66	0	33	33	33	1.58
66977--67028	24	2.2	23	83	13	61	30	3	1	63	1.23
66987--67029	22	2.0	21	82	8	52	32	4	2	60	1.30
67095--67151	21	2.8	20	87	10	73	47	0	1	50	1.11
70000--70029	12	2.5	12	94	0	51	20	0	0	80	0.72
72357--72401	12	4.0	12	81	18	53	57	0	0	42	0.98
73556--73603	8	6.0	8	87	0	60	50	12	0	37	1.41
74223--74254	2	16.0	2	100	0	64	50	0	0	50	1.00
75419--75468	18	2.5	19	78	18	57	62	0	6	32	1.20
79274--79332	5	11.0	5	89	7	73	77	1	0	20	0.85
79276--79333	6	9.8	6	88	7	68	77	1	0	20	0.86
79408--79471	12	5.3	12	81	12	78	0	20	0	79	0.73
79408--79474	4	16.8	4	75	14	50	0	20	0	79	0.74
79401--79463	19	3.2	19	79	18	67	0	17	0	82	0.67
79400--79463	20	3.2	20	80	12	78	0	17	0	82	0.66
79400--79463	16	4.2	16	79	11	64	0	17	0	82	0.66
79403--79474	28	2.5	28	84	6	92	0	20	0	79	0.74
79400--79471	24	3.0	23	80	13	92	0	19	0	80	0.71
79403--79471	9	7.3	10	80	15	51	0	20	0	79	0.73
80666--80703	2	19.0	2	100	0	76	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)
81444--81621	5	36.0	5	67	20	90	40	1	0	57	1.13
81428--81574	29	5.2	27	70	20	95	42	0	0	56	1.09
81440--81591	29	5.4	28	69	14	91	40	0	0	58	1.08
81470--81592	18	6.8	18	73	22	66	40	0	0	57	1.10
81444--81590	43	3.5	43	76	15	114	40	0	0	57	1.08
81874--81904	16	1.9	16	93	0	53	67	3	6	22	1.28
82205--82238	5	6.6	5	86	6	50	61	2	0	35	1.11
82352--82432	38	2.2	37	80	6	92	43	0	2	54	1.13
82389--82429	23	1.9	22	85	14	59	41	0	2	56	1.13
82422--82473	25	2.1	25	82	7	61	50	0	0	50	1.00

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14