genome.fa.s2340.2.7.7.80.10.50.1000.1.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: Scaffold2340
Parameters: 2 7 7 80 10 50 1000
Length:  223142

Tables:   1   2   3   

This is table  1  of  3  ( 248 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)
261--414	8	18.8	8	66	19	59	37	1	1	59	1.14
299--333	18	1.9	18	88	11	54	37	0	0	62	0.95
257--377	47	2.5	50	81	9	135	38	0	1	58	1.14
341--408	11	6.2	11	70	13	59	36	2	0	60	1.12
342--420	28	2.9	27	73	19	74	36	2	1	59	1.19
307--412	17	6.2	16	70	24	58	37	1	0	59	1.15
1639--1673	13	2.6	14	81	9	54	62	0	0	37	0.95
3331--3383	20	2.7	20	77	11	56	58	0	0	41	0.98
3397--3426	2	14.5	2	93	6	51	50	3	0	46	1.18
3774--3819	16	2.8	16	78	15	58	52	0	0	47	1.00
3833--3871	11	3.4	12	82	10	55	33	0	0	66	0.92
4110--4166	18	2.9	20	82	10	64	66	0	0	33	0.92
4103--4186	32	2.6	31	83	7	98	60	0	0	39	0.97
4131--4174	18	2.5	17	85	10	61	65	0	0	34	0.93
4148--4181	13	2.6	13	90	0	50	61	0	0	38	0.96
4187--4241	18	3.1	17	77	12	56	49	0	1	49	1.11
4110--4244	20	7.3	20	68	22	64	57	0	0	42	1.04
4389--4432	18	2.4	19	81	7	56	40	2	0	56	1.11
6074--6107	16	2.1	16	94	0	59	41	0	0	58	0.98
6378--6420	15	2.6	17	85	7	54	48	0	4	46	1.22
16659--16717	29	2.0	29	100	0	118	42	3	6	47	1.46
16651--16692	20	2.1	20	90	0	66	38	4	7	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
17497--17545	18	2.7	19	78	9	57	55	0	0	44	0.99
17517--17615	10	9.1	10	70	25	60	48	0	0	51	1.00
17499--17615	45	2.7	45	81	14	131	50	0	0	49	1.00
17542--17613	21	3.3	21	81	11	65	50	0	0	50	1.00
17524--17617	24	4.1	22	76	21	88	47	0	0	52	1.00
18489--18545	18	3.3	18	85	7	73	63	0	1	35	1.05
18953--19022	5	14.4	5	74	16	58	57	0	2	40	1.14
18955--19021	29	2.3	29	82	5	82	58	0	2	38	1.14
18961--19033	24	3.0	25	78	11	80	53	0	2	43	1.15
19595--19636	12	3.4	13	87	9	61	28	0	0	71	0.86
19595--19631	18	2.1	17	90	5	56	29	0	0	70	0.88
20218--20251	10	3.5	10	88	4	52	79	0	0	20	0.73
20189--20251	30	2.1	29	82	8	74	71	3	0	25	1.01
20188--20251	29	2.2	28	78	13	67	70	3	0	26	1.02
24606--24819	87	2.6	79	74	12	189	15	48	8	26	1.75
24711--24796	36	2.4	36	96	0	154	16	55	8	19	1.65
24982--25240	33	7.9	32	90	4	340	14	45	27	12	1.80
35944--36002	23	2.5	25	81	13	72	54	0	0	45	0.99
37624--37686	24	2.6	25	82	12	78	46	0	0	53	1.00
39212--39251	3	13.3	3	100	0	80	67	0	0	32	0.91
40997--41041	22	2.0	23	86	4	65	42	0	0	57	0.98
43166--43214	24	2.0	25	84	4	64	34	0	2	63	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43314--43362	21	2.3	21	85	0	62	40	2	0	57	1.10
43267--43850	298	2.0	298	95	0	1046	37	9	6	46	1.62
43611--43647	11	3.4	11	84	0	56	37	0	0	62	0.96
47493--48061	89	6.4	87	84	4	678	35	13	7	43	1.73
48746--48788	22	2.0	22	81	9	52	58	2	0	39	1.11
49116--49153	18	2.1	19	90	5	60	60	0	0	39	0.97
49513--49555	2	21.5	2	100	0	86	51	0	0	48	1.00
50819--50852	2	17.0	2	100	0	68	50	0	0	50	1.00
50951--50985	14	2.5	15	90	9	56	40	2	0	57	1.14
54430--54472	3	14.3	3	100	0	86	32	0	0	67	0.91
55371--55414	22	2.0	22	81	0	52	52	2	0	45	1.13
55559--55619	27	2.2	28	75	13	65	65	4	1	27	1.22
55842--55881	20	2.1	19	86	13	55	52	5	0	42	1.23
56566--56590	3	8.3	3	100	0	50	64	0	0	36	0.94
56853--56932	42	2.0	39	85	7	106	55	0	1	43	1.08
56837--56978	10	14.3	10	67	25	63	56	0	2	41	1.11
56837--56979	6	21.9	7	65	26	57	56	0	2	41	1.11
56912--56995	28	3.0	27	74	10	89	54	0	2	42	1.13
67095--67119	7	3.6	7	100	0	50	44	0	0	56	0.99
70646--70724	32	2.5	33	83	8	92	55	0	0	44	0.99
74137--74179	17	2.5	17	92	3	68	67	0	0	32	0.91
74277--74354	35	2.3	35	82	10	90	55	0	2	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74336--74394	31	1.9	31	89	0	91	55	0	0	44	0.99
74336--74394	15	3.8	16	84	6	86	55	0	0	44	0.99
74408--74501	40	2.3	42	76	14	106	52	4	0	43	1.21
74889--74946	16	3.2	19	80	16	77	29	1	0	68	0.99
74920--74973	22	2.4	23	72	12	58	29	3	1	64	1.21
75024--75099	34	2.2	34	84	9	93	42	1	1	55	1.16
80246--80287	8	5.1	8	80	13	50	33	2	2	61	1.21
80246--80295	18	2.9	18	80	11	61	34	2	2	62	1.18
80299--80338	14	2.8	15	88	7	57	55	0	0	45	0.99
80279--80485	109	1.9	108	80	11	237	43	2	1	51	1.27
80522--80567	2	24.0	2	78	8	51	45	0	0	54	0.99
81391--81456	30	2.2	30	81	5	71	39	3	10	46	1.54
82124--82159	17	2.1	18	89	5	56	41	8	0	50	1.33
82260--82352	35	2.5	38	80	15	106	39	17	12	30	1.87
82246--82352	38	2.9	38	79	13	107	37	15	15	30	1.90
83044--83102	10	6.1	10	71	15	52	66	0	1	32	1.02
83041--83117	28	2.8	28	94	4	129	61	1	2	35	1.18
84917--84962	3	15.3	3	100	0	92	32	0	0	67	0.91
85787--85831	17	2.6	17	89	3	63	35	4	0	60	1.17
85805--85850	23	2.0	23	87	4	67	34	0	0	65	0.93
85810--85862	12	4.5	12	83	4	63	35	1	0	62	1.06
85805--85859	23	2.5	22	84	3	65	36	1	0	61	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86641--86665	6	4.2	6	100	0	50	52	0	0	48	1.00
87543--87918	186	2.0	186	90	3	596	39	12	9	38	1.76
90945--90986	16	2.4	17	84	11	50	33	0	4	61	1.17
93071--93164	29	3.3	28	72	20	79	52	5	8	34	1.55
93671--93768	40	2.7	35	77	14	106	33	15	7	43	1.74
93678--93757	40	2.0	40	95	0	142	36	15	6	42	1.72
93772--93813	16	2.4	18	80	11	52	38	9	9	42	1.70
94954--94991	19	2.0	19	100	0	76	63	5	15	15	1.48
95207--95519	156	2.0	156	83	3	398	39	18	15	26	1.90
96843--96909	27	2.4	27	85	7	82	4	17	5	71	1.23
99873--99939	33	2.0	33	88	0	98	34	11	13	40	1.81
99893--99917	13	1.9	13	100	0	50	36	16	16	32	1.90
99981--100005	13	1.9	13	100	0	50	32	16	16	36	1.90
100014--100134	52	2.3	52	95	0	215	34	17	18	29	1.94
107344--107381	17	2.4	16	86	8	51	84	7	7	0	0.79
108316--108397	30	2.7	31	88	1	112	25	28	18	28	1.98
108374--109086	61	11.0	62	82	10	635	20	34	12	32	1.91
108351--109119	34	23.6	33	76	15	544	20	33	13	32	1.91
108532--108583	27	1.9	27	96	0	95	23	38	17	21	1.93
108957--109010	27	2.0	27	92	0	90	22	40	14	22	1.90
108346--109139	165	4.9	161	76	15	648	20	34	12	31	1.91
108990--109139	71	2.1	70	84	6	187	20	33	12	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
109124--109193	33	2.1	35	94	5	126	25	37	17	20	1.94
109193--110003	49	16.8	49	80	9	884	25	25	17	31	1.97
109334--110007	92	7.0	92	87	8	884	25	25	17	31	1.97
109193--109998	146	5.6	145	81	10	694	25	25	17	31	1.97
109715--110046	49	6.5	53	82	5	232	25	25	16	32	1.96
110857--110923	33	2.0	33	88	0	98	34	11	13	40	1.81
110877--110901	13	1.9	13	100	0	50	36	16	16	32	1.90
110965--110989	13	1.9	13	100	0	50	32	16	16	36	1.90
110998--111128	52	2.5	52	93	0	217	35	17	16	31	1.92
119566--119924	49	7.5	49	74	11	305	31	17	25	26	1.97

Tables:   1   2   3