genome.fa.s433.2.7.7.80.10.50.1000.1.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: Scaffold433
Parameters: 2 7 7 80 10 50 1000
Length:  558157

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 567 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)
535--582	17	2.8	17	80	3	51	43	0	0	56	0.99
1389--1455	29	2.3	29	76	5	73	52	0	0	47	1.00
2045--2077	11	2.8	12	86	9	50	54	3	9	33	1.47
2714--2744	11	2.7	11	95	5	53	45	0	0	54	0.99
4992--5036	22	2.2	20	88	8	63	44	0	2	53	1.13
5431--5470	17	2.4	17	87	4	64	55	0	0	45	0.99
5520--5571	17	3.1	17	80	2	52	57	0	0	42	0.98
5837--5902	21	3.1	20	79	16	62	42	3	0	54	1.15
9988--10021	2	17.0	2	100	0	68	50	0	0	50	1.00
16970--17014	6	7.5	6	94	0	81	20	64	0	15	1.29
17779--17839	29	2.1	29	87	0	86	19	4	24	50	1.67
17989--18064	8	9.1	8	74	8	53	73	1	0	25	0.91
17992--18055	17	3.8	16	76	14	58	75	1	0	23	0.90
17986--18055	25	2.7	26	84	4	88	74	1	0	24	0.90
17986--18063	25	3.0	25	81	7	75	74	1	0	24	0.89
19132--19184	15	3.5	15	75	10	54	39	0	0	60	0.97
19121--19184	30	2.1	30	85	5	83	37	1	0	60	1.06
23276--23309	10	3.4	10	100	0	68	82	0	0	17	0.67
23615--23675	31	2.0	31	83	6	79	47	6	8	37	1.59
23805--23853	23	2.1	24	88	3	73	51	0	2	46	1.12
23988--24050	5	12.0	5	78	18	58	57	0	0	42	0.99
24190--24232	19	2.3	19	91	0	68	51	2	2	44	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24186--24231	9	4.8	10	78	7	51	47	2	2	47	1.26
24274--24310	17	2.1	19	90	10	60	56	0	0	43	0.99
26357--26409	26	2.0	26	82	7	63	35	3	16	43	1.67
26646--26694	25	2.0	25	84	8	64	20	8	4	67	1.34
26908--26932	13	1.9	13	100	0	50	72	0	0	28	0.86
27204--27253	25	2.0	25	85	11	68	36	2	0	62	1.07
28131--28174	24	1.9	22	86	9	61	50	4	4	40	1.43
35197--35263	26	2.4	28	74	16	68	55	0	0	44	0.99
35396--35424	2	14.5	2	100	0	58	51	0	0	48	1.00
35835--35859	2	12.5	2	100	0	50	52	0	0	48	1.00
38207--38237	8	3.9	8	100	0	62	35	0	0	64	0.94
39195--39252	23	2.6	23	86	5	75	53	1	0	44	1.10
39285--39352	22	3.0	22	78	2	55	48	0	0	51	1.00
39312--39342	16	1.9	16	93	0	53	58	0	0	41	0.98
39329--39386	6	10.2	6	80	10	52	65	1	0	32	1.03
39320--39408	22	3.9	21	72	20	63	62	1	0	35	1.02
39333--39397	27	2.4	28	84	5	80	63	1	0	35	1.04
39866--39946	34	2.4	34	75	10	94	41	3	12	41	1.60
39958--40049	32	2.9	32	79	9	91	33	2	5	58	1.33
39981--40049	16	4.3	16	83	0	75	31	2	5	59	1.36
39995--40087	32	2.9	32	83	0	96	32	3	6	58	1.40
40108--40140	15	2.2	15	89	10	50	42	18	0	39	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
45008--45036	2	14.5	2	100	0	58	51	0	48	0	1.00
45459--45496	11	3.5	11	88	0	58	23	0	7	68	1.16
45801--45833	14	2.3	15	85	15	52	84	0	15	0	0.61
45929--45979	19	2.8	17	81	18	59	29	7	5	56	1.51
46218--46291	14	4.9	16	72	12	59	59	1	0	39	1.06
46218--46257	16	2.5	17	84	15	59	57	0	0	42	0.98
53908--53962	24	2.3	23	85	11	76	30	5	0	63	1.17
59550--59580	16	1.9	16	93	0	53	45	6	0	48	1.28
60309--60398	39	2.2	41	86	5	121	40	11	7	41	1.69
60565--60601	18	2.1	18	100	0	74	51	21	16	10	1.74
64876--64934	5	11.8	5	85	0	73	52	0	0	47	1.00
64925--64984	19	2.9	20	85	9	77	48	0	0	51	1.00
69831--69856	2	13.0	2	100	0	52	50	0	0	50	1.00
71165--71218	21	2.7	21	83	11	60	37	0	7	55	1.28
71902--71990	42	2.1	42	81	4	99	32	4	19	43	1.71
72799--72845	21	2.2	21	81	11	51	31	12	2	53	1.51
73998--74058	21	2.9	20	83	9	68	42	0	0	57	0.98
74395--74529	68	2.0	67	82	4	164	38	9	10	41	1.72
74559--74601	23	1.9	22	85	4	59	58	9	2	30	1.42
78236--78304	22	3.1	23	78	17	74	43	0	0	56	0.99
78269--78328	13	4.7	14	67	23	51	46	0	0	53	1.00
78266--78312	23	2.0	23	91	0	76	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)
79150--79195	22	2.0	23	83	4	58	47	0	0	52	1.00
79374--79409	2	18.0	2	100	0	72	50	0	0	50	1.00
81534--81580	16	2.9	16	77	20	53	46	0	6	46	1.28
82853--82879	3	9.0	3	100	0	54	66	0	0	33	0.92
84633--84678	23	2.1	21	84	8	56	30	4	4	60	1.35
84925--84999	33	2.3	33	90	0	114	41	6	8	44	1.60
85021--85075	25	2.2	26	90	3	85	38	7	0	54	1.28
91031--91090	30	2.0	30	100	0	120	33	16	10	40	1.82
92736--92783	21	2.3	19	77	19	51	47	0	0	52	1.00
92733--92834	35	2.9	36	78	15	106	51	0	0	48	1.00
92736--92836	23	4.5	22	72	12	80	53	0	0	46	1.00
93031--93068	9	4.3	9	83	6	51	34	0	0	65	0.93
93030--93069	17	2.4	17	87	12	64	37	0	0	62	0.95
93822--94146	75	4.4	74	75	5	237	30	25	17	27	1.97
95503--95623	26	4.7	26	71	8	93	23	35	18	23	1.95
95491--96017	157	3.4	156	79	3	601	25	35	16	22	1.94
95881--95937	26	2.2	26	80	0	69	26	40	15	17	1.90
95491--96065	78	7.3	78	80	2	542	26	34	15	22	1.94
96520--96802	76	3.8	74	81	4	309	30	28	17	24	1.97
96522--96886	76	4.9	72	77	7	266	31	27	16	24	1.96
97266--97344	23	3.2	25	72	20	76	50	0	0	49	1.00
97737--97775	14	2.9	14	84	3	53	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97815--97865	20	2.5	22	78	12	63	52	1	1	43	1.23
98036--98089	27	2.0	27	92	0	90	35	1	9	53	1.44
98123--98176	27	2.0	27	85	7	74	35	1	9	53	1.44
98342--98398	30	1.9	30	92	0	96	21	0	10	68	1.19
99348--99387	8	4.9	8	84	6	53	67	0	0	32	0.91
99655--99708	22	2.5	22	84	6	65	50	0	0	50	1.00
99670--99711	22	1.9	22	95	0	75	42	0	0	57	0.99
100583--100790	75	2.8	74	80	3	238	39	31	9	18	1.83
101233--101306	25	2.7	27	74	12	71	59	2	1	36	1.20
103933--103966	12	2.7	13	86	4	52	82	0	2	14	0.79
104094--104135	19	2.2	19	86	0	57	40	0	0	59	0.97
104370--104407	17	2.2	17	100	0	76	73	15	10	0	1.09
104612--104665	16	3.4	16	72	10	56	51	0	0	48	1.00
104898--104945	8	6.5	8	77	15	50	62	0	0	37	0.95
105127--105178	26	2.0	26	85	10	72	63	0	1	34	1.06
105160--105219	19	3.4	19	72	27	69	56	0	0	43	0.99
105129--105210	21	3.8	22	75	19	75	62	0	1	36	1.03
105869--105908	3	14.3	3	80	15	50	30	0	0	70	0.88
105869--105908	8	4.8	9	87	9	50	30	0	0	70	0.88
105876--105918	21	2.0	22	82	13	54	30	0	2	67	1.03
105910--105970	16	3.6	16	76	23	54	42	0	0	57	0.98
105921--105971	21	2.4	22	87	12	79	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
106033--106090	12	4.7	13	79	14	52	36	3	1	58	1.25
111212--111274	28	2.3	28	88	2	101	31	25	4	38	1.77
112282--112306	2	12.5	2	100	0	50	48	0	0	52	1.00
115696--115724	15	2.0	15	93	6	51	41	0	0	58	0.98
116107--116159	20	2.5	20	78	6	61	45	5	0	49	1.26
116443--116467	12	2.1	12	100	0	50	40	0	0	60	0.97
118761--118800	20	2.1	18	86	13	53	65	0	0	35	0.93
119660--119715	23	2.6	21	75	20	53	39	0	1	58	1.08
119673--119752	30	2.7	30	75	7	76	42	0	0	57	0.98
121425--121523	47	2.1	47	86	1	146	27	13	31	28	1.94

Tables:   1   2   3   4   5