genome.fa.s1559.2.7.7.80.10.50.1000.1.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: Scaffold1559
Parameters: 2 7 7 80 10 50 1000
Length:  258979

Tables:   1   2   3   

This is table  1  of  3  ( 278 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)
10266--10307	21	2.0	21	95	0	75	26	9	11	52	1.68
11472--11505	2	17.0	2	100	0	68	50	0	0	50	1.00
12131--12170	6	6.1	7	91	5	50	60	0	0	40	0.97
12131--12164	12	2.7	13	90	9	61	61	0	0	38	0.96
12227--12275	17	2.9	17	78	6	55	44	2	0	53	1.12
12592--12627	6	6.0	6	93	0	63	30	33	16	19	1.94
12868--12907	14	3.0	14	89	7	57	42	0	0	57	0.98
12883--12940	27	2.2	26	80	20	68	50	0	0	50	1.00
13160--13201	22	2.0	22	90	4	68	54	0	0	45	0.99
14769--14795	2	13.5	2	100	0	54	51	0	0	48	1.00
16558--16603	20	2.3	20	88	7	67	50	0	0	50	1.00
17161--17186	2	13.0	2	100	0	52	50	0	0	50	1.00
17659--17685	2	13.5	2	100	0	54	48	0	0	51	1.00
20117--20156	21	1.9	21	84	0	53	40	20	0	40	1.52
20949--21013	31	2.1	30	83	13	80	44	0	1	53	1.09
21247--21307	18	3.3	18	75	11	54	47	0	0	52	1.00
22195--22238	14	3.0	14	81	12	52	40	0	2	56	1.11
23873--23915	2	21.5	2	95	0	77	48	0	2	48	1.14
24824--24855	2	16.0	2	93	0	55	46	0	3	50	1.17
25299--25323	13	1.9	13	100	0	50	40	0	8	52	1.31
27268--27292	2	12.5	2	100	0	50	52	0	0	48	1.00
28775--28842	26	2.5	28	75	17	72	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
31407--31507	2	49.0	2	86	9	132	46	0	2	49	1.23
33552--33645	25	3.6	25	73	17	75	61	0	1	37	1.03
33652--33712	24	2.7	23	77	7	61	59	0	3	37	1.14
33656--33717	11	5.5	11	74	14	54	61	0	3	35	1.12
37621--37652	16	2.0	16	100	0	64	31	6	12	50	1.65
38373--38440	16	4.4	16	69	20	56	58	1	0	39	1.07
38393--38438	5	9.4	5	77	13	51	60	2	0	36	1.09
38392--38430	20	1.9	20	89	5	60	61	2	0	35	1.10
38401--38443	20	2.2	20	83	8	52	58	0	0	41	0.98
39532--39567	16	2.2	17	90	5	56	69	0	0	30	0.89
40398--40434	14	2.6	15	79	12	51	62	0	0	37	0.96
41520--41558	15	2.7	15	92	4	62	43	0	2	53	1.14
41577--41628	16	3.2	16	78	5	52	32	5	7	53	1.53
42798--42872	32	2.3	32	80	8	89	54	0	2	42	1.14
42819--42867	16	3.0	17	72	22	59	51	0	0	48	1.00
42829--42882	20	2.7	20	77	11	56	50	1	0	48	1.11
43780--43835	18	2.8	21	71	23	57	33	0	0	66	0.92
43795--43837	18	2.4	18	85	11	61	32	0	0	67	0.91
44145--44177	2	16.5	2	100	0	66	51	0	0	48	1.00
44231--44275	15	2.8	16	86	6	56	37	0	4	57	1.19
46990--47039	17	3.1	17	72	27	54	52	2	0	46	1.12
47001--47069	20	3.5	20	75	18	56	52	1	0	46	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48345--48379	2	17.5	2	100	0	70	48	0	0	51	1.00
48449--48505	29	2.0	28	83	10	71	38	0	1	59	1.08
56328--56374	24	2.0	24	95	0	85	36	4	2	57	1.30
56334--56387	24	2.2	24	83	0	63	37	7	3	51	1.48
57087--57124	19	2.0	20	84	5	51	60	2	0	36	1.11
60890--61007	60	2.0	59	89	1	182	30	18	11	39	1.85
61718--61766	20	2.3	22	80	16	59	42	0	0	57	0.99
61708--61847	25	5.2	24	71	20	84	44	0	0	55	1.05
61848--61905	21	3.0	21	73	14	61	32	5	0	62	1.18
62178--62212	17	2.1	17	89	10	54	40	0	0	60	0.97
62166--62218	21	2.5	22	82	14	67	37	0	0	62	0.96
62183--62222	13	3.1	14	86	10	50	40	0	0	60	0.97
62185--62228	24	1.9	24	82	17	58	43	0	0	56	0.99
62234--62276	17	2.4	18	88	3	61	62	2	0	34	1.08
63673--63782	10	10.2	10	72	15	62	57	0	2	40	1.13
63674--63750	24	3.3	22	77	16	75	54	0	2	42	1.14
63743--63797	10	5.0	11	78	12	60	61	0	1	36	1.06
63744--63784	21	2.0	20	90	4	64	63	0	2	34	1.08
64325--64373	20	2.5	20	86	0	62	55	0	2	42	1.11
64453--64488	17	2.2	17	90	5	56	38	0	2	58	1.13
65258--65339	42	1.9	43	90	2	130	28	9	12	50	1.71
65491--65550	28	2.2	27	82	8	77	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67109--67158	19	2.5	20	73	23	52	54	6	0	40	1.25
68345--68413	24	2.8	24	75	12	70	49	1	2	46	1.25
68707--68917	104	2.0	104	95	0	377	27	16	24	31	1.96
69641--69705	22	3.0	22	95	0	112	30	13	18	36	1.90
73177--73222	6	7.7	6	90	0	56	47	23	2	26	1.63
73174--73222	12	4.1	12	83	0	71	46	26	2	24	1.63
73222--73262	6	6.8	6	100	0	82	0	17	48	34	1.47
74448--74617	59	2.9	59	90	0	252	36	13	21	28	1.92
77072--77104	2	16.5	2	100	0	66	51	0	0	48	1.00
85849--85873	3	8.3	3	100	0	50	32	0	0	68	0.90
87587--87629	22	2.0	22	100	0	86	37	13	13	34	1.85
87610--87843	84	2.8	84	99	0	459	31	5	14	48	1.67
94944--94990	24	2.0	24	91	0	76	55	6	10	27	1.58
95387--95425	19	2.0	20	90	5	62	71	2	7	17	1.21
95388--95425	20	1.9	20	88	0	58	73	2	5	18	1.14
95757--95822	3	22.0	3	100	0	132	33	0	0	66	0.92
96409--96465	26	2.2	26	84	12	73	47	10	3	38	1.55
96422--96488	24	2.6	25	86	6	82	40	5	4	49	1.48
96422--96502	24	3.2	24	79	10	74	38	4	3	53	1.41
98658--98701	20	2.2	20	83	4	52	22	0	6	70	1.11
99201--99248	19	2.6	18	77	9	51	52	0	4	43	1.20
101057--101099	22	2.0	22	85	0	59	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
101842--101876	8	4.4	8	96	0	52	51	5	0	42	1.25
101846--101876	2	15.5	2	93	0	53	51	3	0	45	1.17
101889--101919	14	2.2	14	100	0	62	58	0	0	41	0.98
106070--106095	3	8.7	3	100	0	52	65	0	0	34	0.93
106094--106133	3	13.3	3	89	10	64	37	0	0	62	0.95
106786--106815	15	2.0	15	100	0	60	40	0	0	60	0.97
109526--109597	24	3.1	22	75	24	69	27	1	0	70	0.95
109525--109587	12	5.3	11	78	16	63	30	1	0	68	0.99
109535--109595	19	2.9	19	69	26	52	29	0	0	70	0.88
109964--110020	8	7.5	8	77	15	59	42	0	0	57	0.98
109999--110048	20	2.5	21	80	6	59	52	0	0	48	1.00
110065--110140	24	3.0	24	78	17	82	38	2	0	59	1.12
109949--110136	46	4.1	45	71	15	127	42	1	0	55	1.13
110088--110129	19	2.2	20	87	12	61	35	2	0	61	1.09
110390--110425	9	3.9	9	85	7	54	50	0	2	47	1.15
110385--110424	10	4.0	10	83	9	55	50	0	2	47	1.14
110414--110476	31	2.0	31	84	6	83	38	1	1	58	1.17
110665--110698	17	2.1	17	88	5	52	44	0	0	55	0.99
116251--116275	2	12.5	2	100	0	50	48	0	0	52	1.00
117964--118003	16	2.5	16	91	0	62	20	20	17	42	1.89
118006--118041	16	2.2	16	95	0	63	0	5	38	55	1.23
121408--121483	38	2.0	38	92	5	127	39	9	13	38	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
122870--122897	2	14.0	2	100	0	56	50	0	0	50	1.00
126964--127008	2	22.5	2	95	0	81	48	2	0	48	1.13
131134--131354	68	3.3	66	79	6	239	26	6	24	42	1.79
131134--131352	102	2.2	101	86	4	307	26	6	24	42	1.80
131134--131354	34	6.5	33	78	10	214	26	6	24	42	1.79
132638--132862	34	6.7	34	84	2	258	25	6	25	42	1.79
132638--132856	102	2.2	101	89	1	330	26	6	25	41	1.80
137257--137475	34	6.5	34	86	2	280	25	7	26	40	1.82
137257--137475	102	2.2	101	90	3	341	25	7	26	40	1.82
138627--138679	23	2.2	24	80	9	65	45	1	0	52	1.11

Tables:   1   2   3